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(-) Description

Title :  CRYSTAL STRUCTURE OF SARS-COV PAPAIN-LIKE PROTEASE IN COMPLEX WITH C-TERMINAL DOMAIN MOUSE ISG15
 
Authors :  C. D. Daczkowski, J. V. Dzimianski, S. D. Pegan
Date :  10 Oct 16  (Deposition) - 03 May 17  (Release) - 14 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.44
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,B  (1x)
Biol. Unit 2:  C,D  (1x)
Keywords :  Signaling Protein, Hydrolase, Signaling Protein-Hydrolase Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  C. M. Daczkowski, J. V. Dzimianski, J. R. Clasman, O. Goodwin, A. D. Mesecar, S. D. Pegan
Structural Insights Into The Interaction Of Coronavirus Papain-Like Proteases And Interferon-Stimulated Gene Produc 15 From Different Species.
J. Mol. Biol. V. 429 1661 2017
PubMed-ID: 28438633  |  Reference-DOI: 10.1016/J.JMB.2017.04.011

(-) Compounds

Molecule 1 - UBIQUITIN-LIKE PROTEIN ISG15
    Chains: A, C
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Fragment: C-TERMINAL DOMAIN (UNP RESIDUES 78-155
    Gene: ISG15, G1P2, UCRP
    Organism Common: MOUSE
    Organism Scientific: MUS MUSCULUS
    Organism Taxid: 10090
    Synonym: INTERFERON-INDUCED 15 KDA PROTEIN,INTERFERON-INDUCED 17 KDA PROTEIN,IP17,UBIQUITIN CROSS-REACTIVE PROTEIN
 
Molecule 2 - REPLICASE POLYPROTEIN 1AB
    Chains: B, D
    EC Number: 3.4.19.12, 3.4.22.69, 3.4.22.-, 2.7.7.48, 3.6.4.12, 3.6.4.13, 2.1.1.-, 3.1.13.-, 3.1.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Taxid: 469008
    Fragment: UNP RESIDUES 1541-1855
    Gene: REP, 1A-1B
    Organism Common: SARS-COV
    Organism Scientific: SARS CORONAVIRUS
    Organism Taxid: 227859
    Synonym: PP1AB,ORF1AB POLYPROTEIN

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): AB  
Biological Unit 2 (1x):   CD

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 4)

Asymmetric Unit (2, 4)
No.NameCountTypeFull Name
1AYE2Mod. Amino AcidPROP-2-EN-1-AMINE
2ZN2Ligand/IonZINC ION
Biological Unit 1 (1, 1)
No.NameCountTypeFull Name
1AYE1Mod. Amino AcidPROP-2-EN-1-AMINE
2ZN-1Ligand/IonZINC ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1AYE1Mod. Amino AcidPROP-2-EN-1-AMINE
2ZN-1Ligand/IonZINC ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS B:190 , CYS B:193 , CYS B:225 , CYS B:227binding site for residue ZN B 401
2AC2SOFTWARECYS D:190 , CYS D:193 , CYS D:225 , CYS D:227binding site for residue ZN D 401
3AC3SOFTWAREARG C:153 , TRP D:107 , ASN D:110 , CYS D:112 , TYR D:113 , LEU D:163 , GLY D:164 , GLY D:272binding site for Di-peptide GLY C 154 and AYE C 155
4AC4SOFTWAREVAL B:49 , ASN B:50 , ASN C:92 , ILE C:93 , LYS C:108 , VAL C:109 , SER C:110 , GLN C:111 , GLU C:113 , GLN C:114 , GLY C:154 , TYR D:73 , TRP D:107 , ASN D:110 , ASN D:111 , TYR D:113 , LEU D:114 , SER D:115 , SER D:116 , LEU D:151 , ILE D:152 , LEU D:153 , ALA D:154 , SER D:156 , ASN D:157 , LEU D:163 , HIS D:172 , HIS D:176 , GLY D:272 , TYR D:274 , HOH D:504binding site for Di-peptide AYE C 155 and CYS D 112

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5TL7)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5TL7)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5TL7)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5TL7)

(-) Exons   (0, 0)

(no "Exon" information available for 5TL7)

(-) 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:77
                                                                                                             
               SCOP domains ----------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.....eeeeee....hhhhhhhhhhhhhh.hhh.eeeee..ee.....hhhhhh.....eeeeee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------- Transcript
                 5tl7 A  79 PLSILVRNERGHSNIYEVFLTQTVDTLKKKVSQREQVHEDQFWLSFEGRPMEDKELLGEYGLKPQCTVIKHLRLRGx 155
                                    88        98       108       118       128       138       148      |
                                                                                                      155-AYE


Chain B from PDB  Type:PROTEIN  Length:316
                                                                                                                                                                                                                                                                                                                                                            
               SCOP domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeeeee......eeeeee...hhhhhhh.eee..ee......hhhhh..eeee.....hhhhhhhhhhh....hhhhhhhhhhhhhh.....ee..ee.......hhhhhhhhhhhh.......hhhhhhhhhhhhh..hhhhhhhhhhhh........hhhhhhhhhhh.......eeeeeeee...eeeeeeeehhhhheee...hhhhhhhheeee.....eeeeeeeeee..eeeeeeeeeeeeee.....eeeeeee....eeeeeeee...eeeee..eeeee.eeeeeeeeeeee..eee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5tl7 B   1 MEVKTIKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIK 316
                                    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       310      


Chain C from PDB  Type:PROTEIN  Length:77
                                                                                                             
               SCOP domains ----------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeee.....eeeeee....hhhhhhhhhhhhhh.hhh.eeeee..ee.....hhhhhh.....eeeeee..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------- Transcript
                 5tl7 C  79 PLSILVRNERGHSNIYEVFLTQTVDTLKKKVSQREQVHEDQFWLSFEGRPMEDKELLGEYGLKPQCTVIKHLRLRGx 155
                                    88        98       108       118       128       138       148      |
                                                                                                      155-AYE


Chain D from PDB  Type:PROTEIN  Length:313
                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author .eeeeeee......eeeeee...hhhhhhh.eee..ee......hhhhh..eeee....hhhhhhhhhhhh....hhhhhhhhhhhhhh.....ee..ee.......hhhhhhhhhhhh.......hhhhhhhhhhhhhh.hhhhhhhhhhhhh.......hhhhhhhhhhhhh.....eeeeeeee...eeeeeeeehhhhheee...hhhhhhhheeee.....eeeeeeeeee..eeeeeeeeeeeee......eeeeeee....eeeeeeee...eeeee..eeeee..eeeeeeeeeee..eee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5tl7 D   4 KTIKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIK 316
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193       203       213       223       233       243       253       263       273       283       293       303       313
   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  (0, 0)

(no "SCOP Domain" information available for 5TL7)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5TL7)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5TL7)

(-) Gene Ontology  (77, 77)

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 Related Entries

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

UniProtKB/Swiss-Prot
        ISG15_MOUSE | Q64339: 5chf 5chv 5chw 5jze 5tla
        R1AB_CVHSA | P0C6X7: 1o5s 1p76 1p9t 1pa5 1puk 1q1x 1q2w 1qz8 1sxf 1uj1 1uk2 1uk3 1uk4 1uw7 1wof 1ysy 1z1i 1z1j 2a5a 2a5i 2a5k 2acf 2ahm 2aj5 2alv 2amd 2amq 2bx3 2bx4 2c3s 2d2d 2duc 2fav 2fe8 2fyg 2g1f 2g9t 2ga6 2gdt 2gri 2gt7 2gt8 2gtb 2gx4 2gz7 2gz8 2gz9 2h2z 2h85 2hob 2hsx 2idy 2jzd 2jze 2jzf 2k87 2op9 2ozk 2pwx 2q6g 2qc2 2qcy 2qiq 2rhb 2rnk 2v6n 2vj1 2xyq 2xyr 2xyv 2z3c 2z3d 2z3e 2z94 2z9g 2z9j 2z9k 2z9l 3d62 3e9s 3ebn 3r24 4tww 4twy 4wy3 4zuh 5b6o 5c5n 5c5o 5c8s 5c8t 5c8u 5e6j 5f22 5tl6

(-) Related Entries Specified in the PDB File

5tl6 5tla