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(-) Description

Title :  CORONAVIRUS MAIN PROTEINASE (3CLPRO) STRUCTURE: BASIS FOR DESIGN OF ANTI-SARS DRUGS
 
Authors :  K. Anand, J. Ziebuhr, P. Wadhwani, J. R. Mesters, R. Hilgenfeld
Date :  12 May 03  (Deposition) - 20 May 03  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.37
Chains :  Asym. Unit :  A,B,C,D,E,F,G,H
Biol. Unit 1:  A,B,G  (1x)
Biol. Unit 2:  C,D  (1x)
Biol. Unit 3:  E,F,H  (1x)
Keywords :  Sars-Cov, Hcov, Tgev, Hydrolase-Hydrolase Inhibitor Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  K. Anand, J. Ziebuhr, P. Wadhwani, J. R. Mesters, R. Hilgenfeld
Coronavirus Main Proteinase (3Clpro) Structure: Basis For Design Of Anti-Sars Drugs
Science V. 300 1763 2003
PubMed-ID: 12746549  |  Reference-DOI: 10.1126/SCIENCE.1085658

(-) Compounds

Molecule 1 - PUTATIVE CORONAVIRUS NSP2 (3CL-PRO)
    Chains: A, B, C, D, E, F
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PMAL-MPRO
    Expression System Strain: TB1
    Expression System Taxid: 562
    Expression System Vector Type: PLASMID
    Fragment: TGEV MAIN PROTEINASE
    Gene: ORF1A
    Organism Scientific: TRANSMISSIBLE GASTROENTERITIS VIRUS
    Organism Taxid: 11149
 
Molecule 2 - PHQ-VNSTLQ-CHLOROMETHYLKETONE INHIBITOR
    Chains: G, H
    Engineered: YES
    Other Details: SUBSTRATE-ANALOG
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12345678
Asymmetric Unit : ABCDEFGH
Biological Unit 1 (1x): AB    G 
Biological Unit 2 (1x):   CD    
Biological Unit 3 (1x):     EF H

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (3, 30)

Asymmetric Unit (3, 30)
No.NameCountTypeFull Name
10QE2Mod. Amino AcidCHLOROMETHANE
2MRD4Ligand/Ion(4R)-2-METHYLPENTANE-2,4-DIOL
3SO424Ligand/IonSULFATE ION
Biological Unit 1 (3, 9)
No.NameCountTypeFull Name
10QE1Mod. Amino AcidCHLOROMETHANE
2MRD1Ligand/Ion(4R)-2-METHYLPENTANE-2,4-DIOL
3SO47Ligand/IonSULFATE ION
Biological Unit 2 (2, 11)
No.NameCountTypeFull Name
10QE-1Mod. Amino AcidCHLOROMETHANE
2MRD2Ligand/Ion(4R)-2-METHYLPENTANE-2,4-DIOL
3SO49Ligand/IonSULFATE ION
Biological Unit 3 (3, 10)
No.NameCountTypeFull Name
10QE1Mod. Amino AcidCHLOROMETHANE
2MRD1Ligand/Ion(4R)-2-METHYLPENTANE-2,4-DIOL
3SO48Ligand/IonSULFATE ION

(-) Sites  (30, 30)

Asymmetric Unit (30, 30)
No.NameEvidenceResiduesDescription
01AC1SOFTWARETHR C:239 , GLU C:240 , ARG F:80BINDING SITE FOR RESIDUE SO4 C 2001
02AC2SOFTWAREARG C:130 , ASN C:196 , HOH C:2130BINDING SITE FOR RESIDUE SO4 C 2002
03AC3SOFTWAREASN A:168 , LEU A:192 , GLU A:193 , GLY A:194 , HOH A:2054BINDING SITE FOR RESIDUE SO4 A 2003
04AC4SOFTWAREARG A:130 , LYS A:136 , HOH A:2051BINDING SITE FOR RESIDUE SO4 A 2004
05AC5SOFTWAREASN C:168 , LEU C:192 , GLU C:193 , GLY C:194 , HOH C:2093BINDING SITE FOR RESIDUE SO4 C 2005
06AC6SOFTWAREASN B:168 , LEU B:192 , GLU B:193 , GLY B:194 , HOH B:2154BINDING SITE FOR RESIDUE SO4 B 2006
07AC7SOFTWAREHOH B:2172 , ASN E:168 , LEU E:192 , GLU E:193 , GLY E:194 , HOH E:2107 , HOH E:2158BINDING SITE FOR RESIDUE SO4 E 2007
08AC8SOFTWAREARG D:130 , ASN D:196 , HOH D:2097BINDING SITE FOR RESIDUE SO4 D 2008
09AC9SOFTWAREARG E:130 , ASN E:196 , HOH E:2112 , HOH E:2185 , HOH E:2211BINDING SITE FOR RESIDUE SO4 E 2009
10BC1SOFTWAREASN F:168 , LEU F:192 , GLU F:193 , GLY F:194BINDING SITE FOR RESIDUE SO4 F 2010
11BC2SOFTWAREGLY A:214 , GLU A:215 , ARG A:216 , TRP A:217BINDING SITE FOR RESIDUE SO4 A 2011
12BC3SOFTWAREASN D:168 , LEU D:192 , GLU D:193 , GLY D:194 , HOH D:2043 , HOH D:2157BINDING SITE FOR RESIDUE SO4 D 2012
13BC4SOFTWAREARG E:275 , THR E:276 , HOH E:2106 , HOH E:2141BINDING SITE FOR RESIDUE SO4 E 2013
14BC5SOFTWAREGLY D:214 , ARG D:216 , TRP D:217 , ARG D:275 , HOH D:2040 , HOH D:2169BINDING SITE FOR RESIDUE SO4 D 2015
15BC6SOFTWAREARG D:275 , THR D:276BINDING SITE FOR RESIDUE SO4 D 2016
16BC7SOFTWAREARG E:61 , LEU E:62 , HIS E:63 , HOH E:2170BINDING SITE FOR RESIDUE SO4 E 2017
17BC8SOFTWAREGLY E:122 , SER E:123 , ARG F:294BINDING SITE FOR RESIDUE SO4 E 2018
18BC9SOFTWAREILE B:37 , PHE B:102BINDING SITE FOR RESIDUE SO4 B 2019
19CC1SOFTWAREMET C:6 , ARG C:294 , ALA D:115 , SER D:123 , HOH D:2067BINDING SITE FOR RESIDUE SO4 D 2020
20CC2SOFTWARELYS A:103 , SER A:104BINDING SITE FOR RESIDUE SO4 A 2021
21CC3SOFTWAREGLY C:214 , ARG C:216 , TRP C:217 , ARG C:275 , HOH C:2089BINDING SITE FOR RESIDUE SO4 C 2022
22CC4SOFTWAREARG F:61 , LEU F:62 , HIS F:63BINDING SITE FOR RESIDUE SO4 F 2023
23CC5SOFTWAREARG F:130 , LYS F:136 , ASN F:196 , HOH F:2077BINDING SITE FOR RESIDUE SO4 F 2024
24CC6SOFTWAREARG A:19 , SER A:21 , VAL A:26 , SER A:66BINDING SITE FOR RESIDUE SO4 A 2025
25CC7SOFTWAREHIS A:41 , HIS A:163 , GLN A:187 , PRO A:188BINDING SITE FOR RESIDUE MRD A 1001
26CC8SOFTWAREHIS C:41 , ILE C:51 , HIS C:163 , LEU C:164 , HOH C:2128BINDING SITE FOR RESIDUE MRD C 1002
27CC9SOFTWAREHIS D:41 , THR D:47 , HIS D:163 , GLN D:187 , PRO D:188BINDING SITE FOR RESIDUE MRD D 1003
28DC1SOFTWARETHR E:47 , HIS E:163 , LEU E:164 , PRO E:188BINDING SITE FOR RESIDUE MRD E 1004
29DC2SOFTWAREHIS F:41 , THR F:47 , ILE F:51 , PHE F:139 , CYS F:144 , HIS F:162 , HIS F:163 , LEU F:164 , GLU F:165 , LEU F:166 , GLY F:167 , ASP F:186 , GLN F:187 , PRO F:188 , SER F:189 , MET F:190 , GLN F:191BINDING SITE FOR CHAIN H OF PHQ-VNSTLQ- CHLOROMETHYLKETONE INHIBITOR
30DC3SOFTWAREHIS B:41 , ILE B:51 , PHE B:139 , ILE B:140 , CYS B:144 , HIS B:162 , HIS B:163 , LEU B:164 , GLU B:165 , LEU B:166 , GLY B:167 , ASP B:186 , GLN B:187 , PRO B:188 , SER B:189 , MET B:190 , GLN B:191BINDING SITE FOR CHAIN G OF PHQ-VNSTLQ- CHLOROMETHYLKETONE INHIBITOR

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 1P9U)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 1P9U)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1P9U)

(-) PROSITE Motifs  (1, 6)

Asymmetric Unit (1, 6)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1M_PROPS51442 Coronavirus main protease (M-pro) domain profile.R1AB_CVPPU2879-3180
 
 
 
 
 		  6A:1-299
B:1-300
C:1-300
D:1-301
E:1-299
F:1-300
R1A_CVPPU2879-3180
 
 
 
 
 		  6A:1-299
B:1-300
C:1-300
D:1-301
E:1-299
F:1-300
Biological Unit 1 (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1M_PROPS51442 Coronavirus main protease (M-pro) domain profile.R1AB_CVPPU2879-3180
 
 
 
 
 		  2A:1-299
B:1-300
-
-
-
-
R1A_CVPPU2879-3180
 
 
 
 
 		  2A:1-299
B:1-300
-
-
-
-
Biological Unit 2 (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1M_PROPS51442 Coronavirus main protease (M-pro) domain profile.R1AB_CVPPU2879-3180
 
 
 
 
 		  2-
-
C:1-300
D:1-301
-
-
R1A_CVPPU2879-3180
 
 
 
 
 		  2-
-
C:1-300
D:1-301
-
-
Biological Unit 3 (1, 4)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1M_PROPS51442 Coronavirus main protease (M-pro) domain profile.R1AB_CVPPU2879-3180
 
 
 
 
 		  2-
-
-
-
E:1-299
F:1-300
R1A_CVPPU2879-3180
 
 
 
 
 		  2-
-
-
-
E:1-299
F:1-300

(-) Exons   (0, 0)

(no "Exon" information available for 1P9U)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:299
 aligned with R1AB_CVPPU | P0C6Y5 from UniProtKB/Swiss-Prot  Length:6684

    Alignment length:299
                                  2888      2898      2908      2918      2928      2938      2948      2958      2968      2978      2988      2998      3008      3018      3028      3038      3048      3058      3068      3078      3088      3098      3108      3118      3128      3138      3148      3158      3168         
          R1AB_CVPPU   2879 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGV 3177
               SCOP domains d1p9ua_ A: Coronavirus main proteinase (3Cl-pro, putative coronavirus nsp2)                                                                                                                                                                                                                                 SCOP domains
               CATH domains -------------1p9uA01 A:14-97 Trypsin-like serine proteases                                       1p9uA02 A:98-185 Trypsin-like serine proteases                                          -----------1p9uA03 A:197-299 main proteinase (3clpro) structure, domain 3                                          CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhh.eeeeee..eeeeeeee..eeeee.hhhh.......hhhhhhhh.hhhhheeee..eee.eeeeeee..eeeeee..........ee.......eeeeeee....eeeeeeee..................eeeeee..eeeeeeeeeee.....eeee.....hhhhh..............hhhhhhhhhhhhhhh...........hhhhhhhhhh.........hhhhhhhhhhhh.hhhhhhhhhhhhh..................hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) M_PRO  PDB: A:1-299 UniProt: 2879-3180                                                                                                                                                                                                                                                                      PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1p9u A    1 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGV  299
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290         


Chain A from PDB  Type:PROTEIN  Length:299
 aligned with R1A_CVPPU | P0C6V2 from UniProtKB/Swiss-Prot  Length:4017

    Alignment length:299
                                  2888      2898      2908      2918      2928      2938      2948      2958      2968      2978      2988      2998      3008      3018      3028      3038      3048      3058      3068      3078      3088      3098      3108      3118      3128      3138      3148      3158      3168         
           R1A_CVPPU   2879 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGV 3177
               SCOP domains d1p9ua_ A: Coronavirus main proteinase (3Cl-pro, putative coronavirus nsp2)                                                                                                                                                                                                                                 SCOP domains
               CATH domains -------------1p9uA01 A:14-97 Trypsin-like serine proteases                                       1p9uA02 A:98-185 Trypsin-like serine proteases                                          -----------1p9uA03 A:197-299 main proteinase (3clpro) structure, domain 3                                          CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhh.eeeeee..eeeeeeee..eeeee.hhhh.......hhhhhhhh.hhhhheeee..eee.eeeeeee..eeeeee..........ee.......eeeeeee....eeeeeeee..................eeeeee..eeeeeeeeeee.....eeee.....hhhhh..............hhhhhhhhhhhhhhh...........hhhhhhhhhh.........hhhhhhhhhhhh.hhhhhhhhhhhhh..................hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE M_PRO  PDB: A:1-299 UniProt: 2879-3180                                                                                                                                                                                                                                                                      PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1p9u A    1 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGV  299
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290         


Chain B from PDB  Type:PROTEIN  Length:300
 aligned with R1AB_CVPPU | P0C6Y5 from UniProtKB/Swiss-Prot  Length:6684

    Alignment length:300
                                  2888      2898      2908      2918      2928      2938      2948      2958      2968      2978      2988      2998      3008      3018      3028      3038      3048      3058      3068      3078      3088      3098      3108      3118      3128      3138      3148      3158      3168      3178
          R1AB_CVPPU   2879 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGVN 3178
               SCOP domains d1p9ub_ B: Coronavirus main proteinase (3Cl-pro, putative coronavirus nsp2)                                                                                                                                                                                                                                  SCOP domains
               CATH domains -------------1p9uB01 B:14-97 Trypsin-like serine proteases                                       1p9uB02 B:98-185 Trypsin-like serine proteases                                          -----------1p9uB03 B:197-299 main proteinase (3clpro) structure, domain 3                                         - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............hhh.eeeeee..eeeeeeee..eeeee.hhhh.......hhhhhhhh.hhh.eeee....ee.eeeeeee..eeeeee..........ee.......eeeeeeee..eeeeeeeee..................eeeeee..eeeeeeeeeee.....eeee.....hhhhh..............hhhhhhhhhhhhhhh...........hhhhhhhhhhhh.......hhhhhhhhhhhh.hhhhhhhhhhhhh..................hhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (2) M_PRO  PDB: B:1-300 UniProt: 2879-3180                                                                                                                                                                                                                                                                       PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1p9u B    1 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGVN  300
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300


Chain B from PDB  Type:PROTEIN  Length:300
 aligned with R1A_CVPPU | P0C6V2 from UniProtKB/Swiss-Prot  Length:4017

    Alignment length:300
                                  2888      2898      2908      2918      2928      2938      2948      2958      2968      2978      2988      2998      3008      3018      3028      3038      3048      3058      3068      3078      3088      3098      3108      3118      3128      3138      3148      3158      3168      3178
           R1A_CVPPU   2879 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGVN 3178
               SCOP domains d1p9ub_ B: Coronavirus main proteinase (3Cl-pro, putative coronavirus nsp2)                                                                                                                                                                                                                                  SCOP domains
               CATH domains -------------1p9uB01 B:14-97 Trypsin-like serine proteases                                       1p9uB02 B:98-185 Trypsin-like serine proteases                                          -----------1p9uB03 B:197-299 main proteinase (3clpro) structure, domain 3                                         - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............hhh.eeeeee..eeeeeeee..eeeee.hhhh.......hhhhhhhh.hhh.eeee....ee.eeeeeee..eeeeee..........ee.......eeeeeeee..eeeeeeeee..................eeeeee..eeeeeeeeeee.....eeee.....hhhhh..............hhhhhhhhhhhhhhh...........hhhhhhhhhhhh.......hhhhhhhhhhhh.hhhhhhhhhhhhh..................hhhhhhh...... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE M_PRO  PDB: B:1-300 UniProt: 2879-3180                                                                                                                                                                                                                                                                       PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1p9u B    1 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGVN  300
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300


Chain C from PDB  Type:PROTEIN  Length:300
 aligned with R1AB_CVPPU | P0C6Y5 from UniProtKB/Swiss-Prot  Length:6684

    Alignment length:300
                                  2888      2898      2908      2918      2928      2938      2948      2958      2968      2978      2988      2998      3008      3018      3028      3038      3048      3058      3068      3078      3088      3098      3108      3118      3128      3138      3148      3158      3168      3178
          R1AB_CVPPU   2879 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGVN 3178
               SCOP domains d1p9uc_ C: Coronavirus main proteinase (3Cl-pro, putative coronavirus nsp2)                                                                                                                                                                                                                                  SCOP domains
               CATH domains -------------1p9uC01 C:14-97 Trypsin-like serine proteases                                       1p9uC02 C:98-185 Trypsin-like serine proteases                                          -----------1p9uC03 C:197-299 main proteinase (3clpro) structure, domain 3                                         - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............hhh.eeeeee..eeeeeeee..eeeee.hhhh.......hhhhhhhh.hhh.eeee....ee.eeeeeee..eeeeee..........ee.......eeeeeeee..eeeeeeeee..................eeeeee..eeeeeeeeeee.....eeee.....hhhhh..............hhhhhhhhhhhhhhh...........hhhhhhhhhhh........hhhhhhhhhhhh.hhhhhhhhhhhhhhh................hhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (2) M_PRO  PDB: C:1-300 UniProt: 2879-3180                                                                                                                                                                                                                                                                       PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1p9u C    1 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGVN  300
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300


Chain C from PDB  Type:PROTEIN  Length:300
 aligned with R1A_CVPPU | P0C6V2 from UniProtKB/Swiss-Prot  Length:4017

    Alignment length:300
                                  2888      2898      2908      2918      2928      2938      2948      2958      2968      2978      2988      2998      3008      3018      3028      3038      3048      3058      3068      3078      3088      3098      3108      3118      3128      3138      3148      3158      3168      3178
           R1A_CVPPU   2879 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGVN 3178
               SCOP domains d1p9uc_ C: Coronavirus main proteinase (3Cl-pro, putative coronavirus nsp2)                                                                                                                                                                                                                                  SCOP domains
               CATH domains -------------1p9uC01 C:14-97 Trypsin-like serine proteases                                       1p9uC02 C:98-185 Trypsin-like serine proteases                                          -----------1p9uC03 C:197-299 main proteinase (3clpro) structure, domain 3                                         - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............hhh.eeeeee..eeeeeeee..eeeee.hhhh.......hhhhhhhh.hhh.eeee....ee.eeeeeee..eeeeee..........ee.......eeeeeeee..eeeeeeeee..................eeeeee..eeeeeeeeeee.....eeee.....hhhhh..............hhhhhhhhhhhhhhh...........hhhhhhhhhhh........hhhhhhhhhhhh.hhhhhhhhhhhhhhh................hhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE M_PRO  PDB: C:1-300 UniProt: 2879-3180                                                                                                                                                                                                                                                                       PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1p9u C    1 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGVN  300
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300


Chain D from PDB  Type:PROTEIN  Length:301
 aligned with R1AB_CVPPU | P0C6Y5 from UniProtKB/Swiss-Prot  Length:6684

    Alignment length:301
                                  2888      2898      2908      2918      2928      2938      2948      2958      2968      2978      2988      2998      3008      3018      3028      3038      3048      3058      3068      3078      3088      3098      3108      3118      3128      3138      3148      3158      3168      3178 
          R1AB_CVPPU   2879 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGVNL 3179
               SCOP domains d1p9ud_ D: Coronavirus main proteinase (3Cl-pro, putative coronavirus nsp2)                                                                                                                                                                                                                                   SCOP domains
               CATH domains -------------1p9uD01 D:14-97 Trypsin-like serine proteases                                       1p9uD02 D:98-185 Trypsin-like serine proteases                                          -----------1p9uD03 D:197-299 main proteinase (3clpro) structure, domain 3                                         -- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhh.eeeeee..eeeeeeee..eeeee.hhhh.......hhhhhhhh.hhh.eeeee..eee.eeeeeee..eeeeee..........ee.......eeeeeeee..eeeeeeeee..................eeeeee..eeeeeeeeeee.....eeee.....hhhhh..............hhhhhhhhhhhhhhh...........hhhhhhhhhh.........hhhhhhhhhhhh.hhhhhhhhhhhhh..................hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) M_PRO  PDB: D:1-301 UniProt: 2879-3180                                                                                                                                                                                                                                                                        PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1p9u D    1 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGVNL  301
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300 


Chain D from PDB  Type:PROTEIN  Length:301
 aligned with R1A_CVPPU | P0C6V2 from UniProtKB/Swiss-Prot  Length:4017

    Alignment length:301
                                  2888      2898      2908      2918      2928      2938      2948      2958      2968      2978      2988      2998      3008      3018      3028      3038      3048      3058      3068      3078      3088      3098      3108      3118      3128      3138      3148      3158      3168      3178 
           R1A_CVPPU   2879 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGVNL 3179
               SCOP domains d1p9ud_ D: Coronavirus main proteinase (3Cl-pro, putative coronavirus nsp2)                                                                                                                                                                                                                                   SCOP domains
               CATH domains -------------1p9uD01 D:14-97 Trypsin-like serine proteases                                       1p9uD02 D:98-185 Trypsin-like serine proteases                                          -----------1p9uD03 D:197-299 main proteinase (3clpro) structure, domain 3                                         -- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhh.eeeeee..eeeeeeee..eeeee.hhhh.......hhhhhhhh.hhh.eeeee..eee.eeeeeee..eeeeee..........ee.......eeeeeeee..eeeeeeeee..................eeeeee..eeeeeeeeeee.....eeee.....hhhhh..............hhhhhhhhhhhhhhh...........hhhhhhhhhh.........hhhhhhhhhhhh.hhhhhhhhhhhhh..................hhhhhhhhhhh... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE M_PRO  PDB: D:1-301 UniProt: 2879-3180                                                                                                                                                                                                                                                                        PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1p9u D    1 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGVNL  301
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300 


Chain E from PDB  Type:PROTEIN  Length:299
 aligned with R1AB_CVPPU | P0C6Y5 from UniProtKB/Swiss-Prot  Length:6684

    Alignment length:299
                                  2888      2898      2908      2918      2928      2938      2948      2958      2968      2978      2988      2998      3008      3018      3028      3038      3048      3058      3068      3078      3088      3098      3108      3118      3128      3138      3148      3158      3168         
          R1AB_CVPPU   2879 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGV 3177
               SCOP domains d1p9ue_ E: Coronavirus main proteinase (3Cl-pro, putative coronavirus nsp2)                                                                                                                                                                                                                                 SCOP domains
               CATH domains -------------1p9uE01 E:14-97 Trypsin-like serine proteases                                       1p9uE02 E:98-185 Trypsin-like serine proteases                                          -----------1p9uE03 E:197-299 main proteinase (3clpro) structure, domain 3                                          CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhh.eeeeee..eeeeeeee..eeeee.hhhh.......hhhhhhhh.hhh.eeeee..eee.eeeeeee..eeeeee..........ee.......eeeeeeee..eeeeeeeee..................eeeeee..eeeeeeeeeee.....eeee.....hhhhh..............hhhhhhhhhhhhhhh...........hhhhhhhhhhh........hhhhhhhhhhhh.hhhhhhhhhhhhh..................hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (2) M_PRO  PDB: E:1-299 UniProt: 2879-3180                                                                                                                                                                                                                                                                      PROSITE (2)
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1p9u E    1 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGV  299
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290         


Chain E from PDB  Type:PROTEIN  Length:299
 aligned with R1A_CVPPU | P0C6V2 from UniProtKB/Swiss-Prot  Length:4017

    Alignment length:299
                                  2888      2898      2908      2918      2928      2938      2948      2958      2968      2978      2988      2998      3008      3018      3028      3038      3048      3058      3068      3078      3088      3098      3108      3118      3128      3138      3148      3158      3168         
           R1A_CVPPU   2879 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGV 3177
               SCOP domains d1p9ue_ E: Coronavirus main proteinase (3Cl-pro, putative coronavirus nsp2)                                                                                                                                                                                                                                 SCOP domains
               CATH domains -------------1p9uE01 E:14-97 Trypsin-like serine proteases                                       1p9uE02 E:98-185 Trypsin-like serine proteases                                          -----------1p9uE03 E:197-299 main proteinase (3clpro) structure, domain 3                                          CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ............hhh.eeeeee..eeeeeeee..eeeee.hhhh.......hhhhhhhh.hhh.eeeee..eee.eeeeeee..eeeeee..........ee.......eeeeeeee..eeeeeeeee..................eeeeee..eeeeeeeeeee.....eeee.....hhhhh..............hhhhhhhhhhhhhhh...........hhhhhhhhhhh........hhhhhhhhhhhh.hhhhhhhhhhhhh..................hhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE M_PRO  PDB: E:1-299 UniProt: 2879-3180                                                                                                                                                                                                                                                                      PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                1p9u E    1 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGV  299
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290         


Chain F from PDB  Type:PROTEIN  Length:300
 aligned with R1AB_CVPPU | P0C6Y5 from UniProtKB/Swiss-Prot  Length:6684

    Alignment length:300
                                  2888      2898      2908      2918      2928      2938      2948      2958      2968      2978      2988      2998      3008      3018      3028      3038      3048      3058      3068      3078      3088      3098      3108      3118      3128      3138      3148      3158      3168      3178
          R1AB_CVPPU   2879 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGVN 3178
               SCOP domains d1p9uf_ F: Coronavirus main proteinase (3Cl-pro, putative coronavirus nsp2)                                                                                                                                                                                                                                  SCOP domains
               CATH domains -------------1p9uF01 F:14-97 Trypsin-like serine proteases                                       1p9uF02 F:98-185 Trypsin-like serine proteases                                          -----------1p9uF03 F:197-299 main proteinase (3clpro) structure, domain 3                                         - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............hhh.eeeeee..eeeeeeee..eeeee.hhhh.......hhhhhhhh.hhhhheeee..eee.eeeeeee..eeeeee..........ee.......eeeeeee....eeeeeeee..................eeeeee..eeeeeeeeeee.....eeee.....hhhhh..............hhhhhhhhhhhhhhh...........hhhhhhhhhh............hhhhhhhhh.hhhhhhhhhhhhh......hhhhh.......hhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (2) M_PRO  PDB: F:1-300 UniProt: 2879-3180                                                                                                                                                                                                                                                                       PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1p9u F    1 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGVN  300
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300


Chain F from PDB  Type:PROTEIN  Length:300
 aligned with R1A_CVPPU | P0C6V2 from UniProtKB/Swiss-Prot  Length:4017

    Alignment length:300
                                  2888      2898      2908      2918      2928      2938      2948      2958      2968      2978      2988      2998      3008      3018      3028      3038      3048      3058      3068      3078      3088      3098      3108      3118      3128      3138      3148      3158      3168      3178
           R1A_CVPPU   2879 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGVN 3178
               SCOP domains d1p9uf_ F: Coronavirus main proteinase (3Cl-pro, putative coronavirus nsp2)                                                                                                                                                                                                                                  SCOP domains
               CATH domains -------------1p9uF01 F:14-97 Trypsin-like serine proteases                                       1p9uF02 F:98-185 Trypsin-like serine proteases                                          -----------1p9uF03 F:197-299 main proteinase (3clpro) structure, domain 3                                         - CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author ............hhh.eeeeee..eeeeeeee..eeeee.hhhh.......hhhhhhhh.hhhhheeee..eee.eeeeeee..eeeeee..........ee.......eeeeeee....eeeeeeee..................eeeeee..eeeeeeeeeee.....eeee.....hhhhh..............hhhhhhhhhhhhhhh...........hhhhhhhhhh............hhhhhhhhh.hhhhhhhhhhhhh......hhhhh.......hhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE M_PRO  PDB: F:1-300 UniProt: 2879-3180                                                                                                                                                                                                                                                                       PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                1p9u F    1 SGLRKMAQPSGLVEPCIVRVSYGNNVLNGLWLGDEVICPRHVIASDTTRVINYENEMSSVRLHNFSVSKNNVFLGVVSARYKGVNLVLKVNQVNPNTPEHKFKSIKAGESFNILACYEGCPGSVYGVNMRSQGTIKGSFIAGTCGSVGYVLENGILYFVYMHHLELGNGSHVGSNFEGEMYGGYEDQPSMQLEGTNVMSSDNVVAFLYAALINGERWFVTNTSMSLESYNTWAKTNSFTELSSTDAFSMLAAKTGQSVEKLLDSIVRLNKGFGGRTILSYGSLCDEFTPTEVIRQMYGVN  300
                                    10        20        30        40        50        60        70        80        90       100       110       120       130       140       150       160       170       180       190       200       210       220       230       240       250       260       270       280       290       300


Chain G from PDB  Type:PROTEIN  Length:7
                                        
               SCOP domains ------- SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author ....... Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                1p9u G 1441 VNSTLQx 1447
                                  |
                               1447-0QE


Chain H from PDB  Type:PROTEIN  Length:7
                                        
               SCOP domains ------- SCOP domains
               CATH domains ------- CATH domains
               Pfam domains ------- Pfam domains
         Sec.struct. author ....... Sec.struct. author
                 SAPs(SNPs) ------- SAPs(SNPs)
                    PROSITE ------- PROSITE
                 Transcript ------- Transcript
                1p9u H 1441 VNSTLQx 1447
                                  |
                                  |
                               1447-0QE
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 6)

Asymmetric Unit
(-)
Class: All beta proteins (24004)

(-) CATH Domains  (2, 18)

Asymmetric Unit
(-)
Class: Mainly Alpha (13335)
(-)
Class: Mainly Beta (13760)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 1P9U)

(-) Gene Ontology  (40, 66)

Asymmetric Unit(hide GO term definitions)
Chain A,B,C,D,E,F   (R1AB_CVPPU | P0C6Y5)
molecular function
    GO:0005524    ATP binding    Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0003968    RNA-directed 5'-3' RNA polymerase activity    Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1); uses an RNA template, i.e. the catalysis of RNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time.
    GO:0004197    cysteine-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile.
    GO:0008234    cysteine-type peptidase activity    Catalysis of the hydrolysis of peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile.
    GO:0004519    endonuclease activity    Catalysis of the hydrolysis of ester linkages within nucleic acids by creating internal breaks.
    GO:0004527    exonuclease activity    Catalysis of the hydrolysis of ester linkages within nucleic acids by removing nucleotide residues from the 3' or 5' end.
    GO:0016896    exoribonuclease activity, producing 5'-phosphomonoesters    Catalysis of the hydrolysis of ester linkages within ribonucleic acids by removing nucleotide residues from the 3' or 5' end to yield 5' phosphomonoesters.
    GO:0004386    helicase activity    Catalysis of the reaction: NTP + H2O = NDP + phosphate, to drive the unwinding of a DNA or RNA helix.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0008168    methyltransferase activity    Catalysis of the transfer of a methyl group to an acceptor molecule.
    GO:0004518    nuclease activity    Catalysis of the hydrolysis of ester linkages within nucleic acids.
    GO:0000166    nucleotide binding    Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
    GO:0016779    nucleotidyltransferase activity    Catalysis of the transfer of a nucleotidyl group to a reactant.
    GO:0008242    omega peptidase activity    Catalysis of the removal of terminal peptide residues that are substituted, cyclized or linked by isopeptide bonds (peptide linkages other than those of alpha-carboxyl to alpha-amino groups).
    GO:0008233    peptidase activity    Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
    GO:0036459    thiol-dependent ubiquitinyl hydrolase activity    Catalysis of the thiol-dependent hydrolysis of an ester, thioester, amide, peptide or isopeptide bond formed by the C-terminal glycine of ubiquitin.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0090503    RNA phosphodiester bond hydrolysis, exonucleolytic    The chemical reactions and pathways involving the hydrolysis of terminal 3',5'-phosphodiester bonds in one or two strands of ribonucleotides.
    GO:0030683    evasion or tolerance by virus of host immune response    Any process, either active or passive, by which a virus avoids the effects of the host organism's immune response. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0039520    induction by virus of host autophagy    Any process in which a virus activates or increases the frequency, rate or extent of autophagy in the host.
    GO:0032259    methylation    The process in which a methyl group is covalently attached to a molecule.
    GO:0039648    modulation by virus of host protein ubiquitination    Any process in which a virus modulates the frequency, rate or extent of protein ubiquitination in the host organism. Ubiquitination is the process in which one or more ubiquitin groups are added to a protein.
    GO:0090305    nucleic acid phosphodiester bond hydrolysis    The nucleic acid metabolic process in which the phosphodiester bonds between nucleotides are cleaved by hydrolysis.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
    GO:0039548    suppression by virus of host IRF3 activity    Any process in which a virus stops, prevents, or reduces the activity of host IRF3 (interferon regulatory factor-3), a transcription factor in the RIG-I/MDA-5 signaling pathway. Viral infection triggers phosphorylation of cytoplasmic IRF3, which allows IRF3 to form a homodimer, migrate to the nucleus, and activate transcription of IFN-alpha and IFN-beta genes.
    GO:0039503    suppression by virus of host innate immune response    Any process in which a virus stops, prevents, or reduces the frequency, rate or extent of the innate immune response of the host organism, the host's first line of defense.
    GO:0006351    transcription, DNA-templated    The cellular synthesis of RNA on a template of DNA.
    GO:0001172    transcription, RNA-templated    The cellular synthesis of RNA on a template of RNA.
    GO:0019079    viral genome replication    Any process involved directly in viral genome replication, including viral nucleotide metabolism.
    GO:0016032    viral process    A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
    GO:0019082    viral protein processing    Any protein maturation process achieved by the cleavage of a peptide bond or bonds within a viral protein.
cellular component
    GO:0030430    host cell cytoplasm    The cytoplasm of a host cell.
    GO:0044172    host cell endoplasmic reticulum-Golgi intermediate compartment    A complex system of membrane-bounded compartments located between host cell endoplasmic reticulum (ER) and the host Golgi complex, with a distinctive membrane protein composition; involved in ER-to-Golgi transport.
    GO:0033644    host cell membrane    Double layer of lipid molecules as it encloses host cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0044220    host cell perinuclear region of cytoplasm    The host cell cytoplasm situated near, or occurring around, the host nucleus.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

Chain A,B,C,D,E,F   (R1A_CVPPU | P0C6V2)
molecular function
    GO:0003723    RNA binding    Interacting selectively and non-covalently with an RNA molecule or a portion thereof.
    GO:0003968    RNA-directed 5'-3' RNA polymerase activity    Catalysis of the reaction: nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1); uses an RNA template, i.e. the catalysis of RNA-template-directed extension of the 3'-end of an RNA strand by one nucleotide at a time.
    GO:0004197    cysteine-type endopeptidase activity    Catalysis of the hydrolysis of internal, alpha-peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile.
    GO:0008234    cysteine-type peptidase activity    Catalysis of the hydrolysis of peptide bonds in a polypeptide chain by a mechanism in which the sulfhydryl group of a cysteine residue at the active center acts as a nucleophile.
    GO:0016787    hydrolase activity    Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3.
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.
    GO:0008242    omega peptidase activity    Catalysis of the removal of terminal peptide residues that are substituted, cyclized or linked by isopeptide bonds (peptide linkages other than those of alpha-carboxyl to alpha-amino groups).
    GO:0008233    peptidase activity    Catalysis of the hydrolysis of a peptide bond. A peptide bond is a covalent bond formed when the carbon atom from the carboxyl group of one amino acid shares electrons with the nitrogen atom from the amino group of a second amino acid.
    GO:0036459    thiol-dependent ubiquitinyl hydrolase activity    Catalysis of the thiol-dependent hydrolysis of an ester, thioester, amide, peptide or isopeptide bond formed by the C-terminal glycine of ubiquitin.
    GO:0016740    transferase activity    Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
    GO:0008270    zinc ion binding    Interacting selectively and non-covalently with zinc (Zn) ions.
biological process
    GO:0030683    evasion or tolerance by virus of host immune response    Any process, either active or passive, by which a virus avoids the effects of the host organism's immune response. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0039520    induction by virus of host autophagy    Any process in which a virus activates or increases the frequency, rate or extent of autophagy in the host.
    GO:0039648    modulation by virus of host protein ubiquitination    Any process in which a virus modulates the frequency, rate or extent of protein ubiquitination in the host organism. Ubiquitination is the process in which one or more ubiquitin groups are added to a protein.
    GO:0006508    proteolysis    The hydrolysis of proteins into smaller polypeptides and/or amino acids by cleavage of their peptide bonds.
    GO:0039548    suppression by virus of host IRF3 activity    Any process in which a virus stops, prevents, or reduces the activity of host IRF3 (interferon regulatory factor-3), a transcription factor in the RIG-I/MDA-5 signaling pathway. Viral infection triggers phosphorylation of cytoplasmic IRF3, which allows IRF3 to form a homodimer, migrate to the nucleus, and activate transcription of IFN-alpha and IFN-beta genes.
    GO:0039503    suppression by virus of host innate immune response    Any process in which a virus stops, prevents, or reduces the frequency, rate or extent of the innate immune response of the host organism, the host's first line of defense.
    GO:0001172    transcription, RNA-templated    The cellular synthesis of RNA on a template of RNA.
    GO:0019079    viral genome replication    Any process involved directly in viral genome replication, including viral nucleotide metabolism.
    GO:0016032    viral process    A multi-organism process in which a virus is a participant. The other participant is the host. Includes infection of a host cell, replication of the viral genome, and assembly of progeny virus particles. In some cases the viral genetic material may integrate into the host genome and only subsequently, under particular circumstances, 'complete' its life cycle.
    GO:0019082    viral protein processing    Any protein maturation process achieved by the cleavage of a peptide bond or bonds within a viral protein.
cellular component
    GO:0030430    host cell cytoplasm    The cytoplasm of a host cell.
    GO:0033644    host cell membrane    Double layer of lipid molecules as it encloses host cells, and, in eukaryotes, many organelles; may be a single or double lipid bilayer; also includes associated proteins. The host is defined as the larger of the organisms involved in a symbiotic interaction.
    GO:0044220    host cell perinuclear region of cytoplasm    The host cell cytoplasm situated near, or occurring around, the host nucleus.
    GO:0016021    integral component of membrane    The component of a membrane consisting of the gene products and protein complexes having at least some part of their peptide sequence embedded in the hydrophobic region of the membrane.
    GO:0016020    membrane    A lipid bilayer along with all the proteins and protein complexes embedded in it an attached to it.

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  R1AB_CVPPU | P0C6Y5
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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        R1AB_CVPPU | P0C6Y5: 1lvo 2amp
        R1A_CVPPU | P0C6V2: 1lvo 2amp 3mp2 3zbd 4f49

(-) Related Entries Specified in the PDB File

1lvo TRANSMISSIBLE GASTROENTERITIS VIRUS (TGEV) MAIN PROTEINASE
1p9s
1p9t