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(-) Description

Title :  CRYSTAL STRUCTURE OF THE MUTANT I26A/N52A OF THE ENDORIBONUCLEASE FROM HUMAN CORONAVIRUS 229E
 
Authors :  T. Huo, X. Liu
Date :  15 Jan 15  (Deposition) - 20 Jan 16  (Release) - 20 Jan 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.50
Chains :  Asym. Unit :  A,B,C,D,E,F
Biol. Unit 1:  A,B,F  (2x)
Biol. Unit 2:  C,D,E  (2x)
Keywords :  Hcov-229E, Endoribonuclease, Trimeric Nsp15, Double Mutation, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  T. Huo, X. Liu, C. Yang, Z. Rao
Crystal Structure And Mutational Analysis Of The Endoribonuclease From Human Coronavirus 229E
To Be Published
PubMed: search

(-) Compounds

Molecule 1 - URIDYLATE-SPECIFIC ENDORIBONUCLEASE
    Chains: A, B, C, D, E, F
    EC Number: 3.1.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: REP, 1A-1B
    Mutation: YES
    Organism Common: HCOV-229E
    Organism Scientific: HUMAN CORONAVIRUS 229E
    Organism Taxid: 11137
    Synonym: NSP15, NONSTRUCTURAL PROTEIN 15

 Structural Features

(-) Chains, Units

  123456
Asymmetric Unit : ABCDEF
Biological Unit 1 (2x): AB   F
Biological Unit 2 (2x):   CDE 

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 6)

Asymmetric Unit (1, 6)
No.NameCountTypeFull Name
1PO46Ligand/IonPHOSPHATE ION
Biological Unit 1 (1, 6)
No.NameCountTypeFull Name
1PO46Ligand/IonPHOSPHATE ION
Biological Unit 2 (1, 6)
No.NameCountTypeFull Name
1PO46Ligand/IonPHOSPHATE ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:235 , GLY A:248 , HIS A:250 , LYS A:291 , THR A:342BINDING SITE FOR RESIDUE PO4 A 401
2AC2SOFTWAREHIS B:235 , GLY B:248 , HIS B:250 , LYS B:291 , THR B:342 , HOH B:538BINDING SITE FOR RESIDUE PO4 B 401
3AC3SOFTWAREHIS C:250 , LYS C:291 , THR C:342 , HOH C:504 , HOH C:591BINDING SITE FOR RESIDUE PO4 C 401
4AC4SOFTWAREHIS D:235 , HIS D:250 , LYS D:291 , THR D:342 , HOH D:521 , HOH D:593BINDING SITE FOR RESIDUE PO4 D 401
5AC5SOFTWAREHIS E:235 , GLY E:248 , HIS E:250 , LYS E:291 , HOH E:598BINDING SITE FOR RESIDUE PO4 E 401
6AC6SOFTWAREHIS F:235 , GLY F:248 , HIS F:250 , LYS F:291 , THR F:342 , HOH F:538 , HOH F:584BINDING SITE FOR RESIDUE PO4 F 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4S1T)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Gly A:144 -Lys A:145

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4S1T)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4S1T)

(-) Exons   (0, 0)

(no "Exon" information available for 4S1T)

(-) 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:342
                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh..........eeee..eeeee....eeeeee.....hhhhhhhhhhh....ee..hhhhhhh...eee....ee....ee...eee.............eeee....hhhhhhhhh..eeeee.................eeee..eeee.........eeeeee..ee....................hhhhhhhhhhhhhhhhhhhh....hhhhhh.............hhhhhhhhhhhh.eeeee.........eeeeeee....eeeeeeee...hhhhhhhhhh.......eeeeeeee..eeeeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4s1t A   0 SGLENIAFNVVNKGSFVGADGELPVAASGDKVFVRDGNTDNLVFVNKTSLPTAIAFELFAKRKVGLTPPLSILKNLGVVATYKFVLWDYEAERPLTSFTKSVCGYTDFAEDVCTCYDNSIQGSYERFTLSTNAVLFSATAVKTGGKSLPAIKLNFGMLNGNAIATVNIKNINWFVYVRKDGKPVDHYDGFYTQGRNLQDFLPRSTMEEDFLNMDIGVFIQKYGLEDFNFEHVVYGDVSKTTLGGLHLLISQVRLSKMGILKAEEFVAASDITLKCCTVTYLNDPSSKTVCTYMDLLLDDFVSVLKSLDLTVVSKVHEVIIDNKPWRWMLWCKDNAVATFYPQ 346
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159     ||174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344  
                                                                                                                                                                                               165|                                                                                                                                                                               
                                                                                                                                                                                                171                                                                                                                                                                               


Chain B from PDB  Type:PROTEIN  Length:342
                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh..........eeee..eeeee....eeeeee.....hhhhhhhhhhh....ee..hhhhhhh...eee....ee....ee...eee.............eeee....hhhhhhhhh..eeeee.............eee.eeee..eeee........eeeeeee..ee....................hhhhhhhhhhhhhhhhhhhh....hhhhhh.............hhhhhhhhhhhh.eeeee.........eeeeeee....eeeeeeee...hhhhhhhhhh.......eeeeeeee..eeeeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4s1t B   0 SGLENIAFNVVNKGSFVGADGELPVAASGDKVFVRDGNTDNLVFVNKTSLPTAIAFELFAKRKVGLTPPLSILKNLGVVATYKFVLWDYEAERPLTSFTKSVCGYTDFAEDVCTCYDNSIQGSYERFTLSTNAVLFSATAVKTGGKSLPAIKLNFGMLNGNAIATVNIKNINWFVYVRKDGKPVDHYDGFYTQGRNLQDFLPRSTMEEDFLNMDIGVFIQKYGLEDFNFEHVVYGDVSKTTLGGLHLLISQVRLSKMGILKAEEFVAASDITLKCCTVTYLNDPSSKTVCTYMDLLLDDFVSVLKSLDLTVVSKVHEVIIDNKPWRWMLWCKDNAVATFYPQ 346
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159     ||174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344  
                                                                                                                                                                                               165|                                                                                                                                                                               
                                                                                                                                                                                                171                                                                                                                                                                               


Chain C from PDB  Type:PROTEIN  Length:342
                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh..........eeee..eeeee....eeeeee.....hhhhhhhhhhh....ee..hhhhhhh...eee....ee....ee....ee.............eeee....hhhhhhhhh..eeeee....ee..ee...eee.eeee..eeee........eeeeeee..ee....................hhhhhhhhhhhhhhhhhhhh....hhhhhh.............hhhhhhhhhhhh.eeeee.........eeeeeee....eeeeeeee...hhhhhhhhhh.......eeeeeeee..eeeeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4s1t C   0 SGLENIAFNVVNKGSFVGADGELPVAASGDKVFVRDGNTDNLVFVNKTSLPTAIAFELFAKRKVGLTPPLSILKNLGVVATYKFVLWDYEAERPLTSFTKSVCGYTDFAEDVCTCYDNSIQGSYERFTLSTNAVLFSATAVKTGGKSLPAIKLNFGMLNGNAIATVNIKNINWFVYVRKDGKPVDHYDGFYTQGRNLQDFLPRSTMEEDFLNMDIGVFIQKYGLEDFNFEHVVYGDVSKTTLGGLHLLISQVRLSKMGILKAEEFVAASDITLKCCTVTYLNDPSSKTVCTYMDLLLDDFVSVLKSLDLTVVSKVHEVIIDNKPWRWMLWCKDNAVATFYPQ 346
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159     ||174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344  
                                                                                                                                                                                               165|                                                                                                                                                                               
                                                                                                                                                                                                171                                                                                                                                                                               


Chain D from PDB  Type:PROTEIN  Length:342
                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh..........eeee..eeeee....eeeeee.....hhhhhhhhhhh....ee..hhhhhhh...eee....ee....ee....ee.............eeee....hhhhhhhhh..eeeee.............eee.eeee..eeee........eeeeeee..ee....................hhhhhhhhhhhhhhhhhhhh....hhhhhh.............hhhhhhhhhhhh.eeeee.........eeeeeee....eeeeeeee...hhhhhhhhhh.......eeeeeeee..eeeeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4s1t D   0 SGLENIAFNVVNKGSFVGADGELPVAASGDKVFVRDGNTDNLVFVNKTSLPTAIAFELFAKRKVGLTPPLSILKNLGVVATYKFVLWDYEAERPLTSFTKSVCGYTDFAEDVCTCYDNSIQGSYERFTLSTNAVLFSATAVKTGGKSLPAIKLNFGMLNGNAIATVNIKNINWFVYVRKDGKPVDHYDGFYTQGRNLQDFLPRSTMEEDFLNMDIGVFIQKYGLEDFNFEHVVYGDVSKTTLGGLHLLISQVRLSKMGILKAEEFVAASDITLKCCTVTYLNDPSSKTVCTYMDLLLDDFVSVLKSLDLTVVSKVHEVIIDNKPWRWMLWCKDNAVATFYPQ 346
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159     ||174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344  
                                                                                                                                                                                               165|                                                                                                                                                                               
                                                                                                                                                                                                171                                                                                                                                                                               


Chain E from PDB  Type:PROTEIN  Length:342
                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh..........eeee..eeeee....eeeeee.....hhhhhhhhhhh....ee..hhhhhhh...eee....ee....ee...eee.............eeee....hhhhhhhhh..eeeee.............eee.eeee..eeee........eeeeeee..ee....................hhhhhhhhhhhhhhhhhhhh....hhhhhh.............hhhhhhhhhhhh.eeeee.........eeeeeee....eeeeeeee...hhhhhhhhhh.......eeeeeeee..eeeeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4s1t E   0 SGLENIAFNVVNKGSFVGADGELPVAASGDKVFVRDGNTDNLVFVNKTSLPTAIAFELFAKRKVGLTPPLSILKNLGVVATYKFVLWDYEAERPLTSFTKSVCGYTDFAEDVCTCYDNSIQGSYERFTLSTNAVLFSATAVKTGGKSLPAIKLNFGMLNGNAIATVNIKNINWFVYVRKDGKPVDHYDGFYTQGRNLQDFLPRSTMEEDFLNMDIGVFIQKYGLEDFNFEHVVYGDVSKTTLGGLHLLISQVRLSKMGILKAEEFVAASDITLKCCTVTYLNDPSSKTVCTYMDLLLDDFVSVLKSLDLTVVSKVHEVIIDNKPWRWMLWCKDNAVATFYPQ 346
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159     ||174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344  
                                                                                                                                                                                               165|                                                                                                                                                                               
                                                                                                                                                                                                171                                                                                                                                                                               


Chain F from PDB  Type:PROTEIN  Length:342
                                                                                                                                                                                                                                                                                                                                                                                      
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .hhhhhhhhhhhhh..........eeee..eeeeee..eeeeeee.....hhhhhhhhhhh....ee..hhhhhhh...eee....ee....ee...eee.............eeee....hhhhhhhhh..eeeee.............eee.eeee..eeee........eeeeeee..ee....................hhhhhhhhhhhhhhhhhhhh....hhhhhh.............hhhhhhhhhhhh.eeeee.........eeeeeee....eeeeeeee...hhhhhhhhhh.......eeeeeeee..eeeeeeeeee..eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4s1t F   0 SGLENIAFNVVNKGSFVGADGELPVAASGDKVFVRDGNTDNLVFVNKTSLPTAIAFELFAKRKVGLTPPLSILKNLGVVATYKFVLWDYEAERPLTSFTKSVCGYTDFAEDVCTCYDNSIQGSYERFTLSTNAVLFSATAVKTGGKSLPAIKLNFGMLNGNAIATVNIKNINWFVYVRKDGKPVDHYDGFYTQGRNLQDFLPRSTMEEDFLNMDIGVFIQKYGLEDFNFEHVVYGDVSKTTLGGLHLLISQVRLSKMGILKAEEFVAASDITLKCCTVTYLNDPSSKTVCTYMDLLLDDFVSVLKSLDLTVVSKVHEVIIDNKPWRWMLWCKDNAVATFYPQ 346
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159     ||174       184       194       204       214       224       234       244       254       264       274       284       294       304       314       324       334       344  
                                                                                                                                                                                               165|                                                                                                                                                                               
                                                                                                                                                                                                171
   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 4S1T)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4S1T)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4S1T)

(-) Gene Ontology  (41, 41)

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  4s1t
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  R1AB_CVH22 | P0C6X1
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        R1AB_CVH22 | P0C6X1: 1p9s 2j97 2j98 3ejg 4rs4

(-) Related Entries Specified in the PDB File

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