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(-) Description

Title :  CRYSTAL STRUCTURE OF SARS-COV PAPAIN-LIKE PROTEASE IN COMPLEX WITH THE C-TERMINAL DOMAIN OF HUMAN ISG15
 
Authors :  J. V. Dzimianski, C. M. Daczkowski, S. D. Pegan
Date :  10 Oct 16  (Deposition) - 03 May 17  (Release) - 14 Jun 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.62
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 - REPLICASE POLYPROTEIN 1AB
    ChainsB, D
    EC Number3.4.19.12, 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.-.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System Taxid469008
    FragmentUNP RESIDUES 1541-1855
    GeneREP, 1A-1B
    Organism CommonSARS-COV
    Organism ScientificHUMAN SARS CORONAVIRUS
    Organism Taxid227859
    SynonymPP1AB,ORF1AB POLYPROTEIN
 
Molecule 2 - UBIQUITIN-LIKE PROTEIN ISG15
    ChainsC, A
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21(DE3)
    Expression System Taxid469008
    FragmentC-TERMINAL DOMAIN (UNP RESIDUES 80-157)
    GeneISG15, G1P2, UCRP
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymINTERFERON-INDUCED 15 KDA PROTEIN,INTERFERON-INDUCED 17 KDA PROTEIN,IP17,UBIQUITIN CROSS-REACTIVE PROTEIN,HUCRP

 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  (3, 5)

Asymmetric Unit (3, 5)
No.NameCountTypeFull Name
1AYE2Mod. Amino AcidPROP-2-EN-1-AMINE
2SO41Ligand/IonSULFATE ION
3ZN2Ligand/IonZINC ION
Biological Unit 1 (2, 2)
No.NameCountTypeFull Name
1AYE1Mod. Amino AcidPROP-2-EN-1-AMINE
2SO41Ligand/IonSULFATE ION
3ZN-1Ligand/IonZINC ION
Biological Unit 2 (1, 1)
No.NameCountTypeFull Name
1AYE1Mod. Amino AcidPROP-2-EN-1-AMINE
2SO4-1Ligand/IonSULFATE ION
3ZN-1Ligand/IonZINC ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS B:190 , CYS B:193 , CYS B:225 , CYS B:227binding site for residue ZN B 401
2AC2SOFTWAREASN B:14 , ARG B:139 , ASN B:147binding site for residue SO4 B 402
3AC3SOFTWARECYS D:190 , CYS D:193 , CYS D:225 , CYS D:227binding site for residue ZN D 401

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5TL6)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 5TL6)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5TL6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5TL6)

(-) Exons   (0, 0)

(no "Exon" information available for 5TL6)

(-) 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:78
                                                                                                              
               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
                 5tl6 A  80 EPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRGx 157
                                    89        99       109       119       129       139       149       |
                                                                                                       157-AYE

Chain B from PDB  Type:PROTEIN  Length:315
                                                                                                                                                                                                                                                                                                                                                           
               SCOP domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeee......eeeeee...hhhhhhh.eee..ee......hhhhh..eeee...hhhhhhhhhhhhh....hhhhhhhhhhhhhh.....ee..ee.......hhhhhhhhhhhh.......hhhhhhhhhhhh...hhhhhhhhhhhh........hhhhhhhhhhh.......eeeeeee.....eeeeeeehhhhheee...hhhhhhhheeee.....eeeeeeeeee..eeeeeeeeeeeee......eeeeeeee..eeeeeeeee...eeeee..eeeee..eeeeeeeeeee...ee.... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5tl6 B   2 EVKTIKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIK 316
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221       231       241       251       261       271       281       291       301       311     

Chain C from PDB  Type:PROTEIN  Length:79
                                                                                                               
               SCOP domains ------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee.....eeeeee....hhhhhhhhhhhhhh.hhh.eeeee..eee....hhhhhh.....eeeeee..... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------- Transcript
                 5tl6 C  79 MEPLSILVRNNKGRSSTYEVRLTQTVAHLKQQVSGLEGVQDDLFWLTFEGKPLEDQLPLGEYGLKPLSTVFMNLRLRGx 157
                                    88        98       108       118       128       138       148        |
                                                                                                        157-AYE

Chain D from PDB  Type:PROTEIN  Length:312
                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .eeeeee.....eeeeee....hhhhhh..ee...........hhhhh..eeee.......hhhhhhhhh....hhhhhhhhhhhhhh.....ee..ee.......hhhhhhhhhhhh.......hhhhhhhhhhhhhh.hhhhhhhhhhhh........hhhhhhhhhhhh......eeeeeeee...eeeeeeeehhhhheee...hhhhhhhheeee.....eeeeeeeeee..eeeeeeeeeeee.......eeeeeee....eeeeeeee...eeeee..eeeee...eeeeeeeeee..eee.... Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 5tl6 D   5 TIKVFTTVDNTNLHTQLVDMSMTYGQQFGPTYLDGADVTKIKPHVNHEGKTFFVLPSDDTLRSEAFEYYHTLDESFLGRYMSALNHTKKWKFPQVGGLTSIKWADNNCYLSSVLLALQQLEVKFNAPALQEAYYRARAGDAANFCALILAYSNKTVGELGDVRETMTHLLQHANLESAKRVLNVVCKHCGQKTTTLTGVEAVMYMGTLSYDNLKTGVSIPCVCGRDATQYLVQQESSFVMMSAPPAEYKLQQGTFLCANEYTGNYQCGHYTHITAKETLYRIDGAHLTKMSEYKGPVTDVFYKETSYTTTIK 316
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204       214       224       234       244       254       264       274       284       294       304       314  

   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 5TL6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5TL6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5TL6)

(-) Gene Ontology  (84, 85)

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 Related Entries

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        ISG15_HUMAN | P051611z2m 2hj8 3phx 3pse 3r66 3rt3 3sdl
        R1AB_CVHSA | P0C6X71o5s 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 5tl7

(-) Related Entries Specified in the PDB File

5tl7 5tla