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(-) Description

Title :  STRUCTURE OF USP7 WITH A NOVEL VIRAL PROTEIN
 
Authors :  S. Chavoshi, V. Saridakis
Date :  17 Mar 15  (Deposition) - 03 Feb 16  (Release) - 03 Feb 16  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.02
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Usp7, Viral Protein, Hydrolase-Peptide Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Chavoshi, O. Egorova, I. K. Lacdao, S. Farhadi, Y. Sheng, V. Saridakis
Structure Of Usp7 With A Novel Viral Protein
J. Biol. Chem. 2016
PubMed: search  |  Reference-DOI: 10.1074/JBC.M115.710632

(-) Compounds

Molecule 1 - UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 7
    Chains: A
    EC Number: 3.4.19.12
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 63-205
    Gene: USP7, HAUSP
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: DEUBIQUITINATING ENZYME 7,HERPESVIRUS-ASSOCIATED UBIQUITIN- SPECIFIC PROTEASE,UBIQUITIN THIOESTERASE 7,UBIQUITIN-SPECIFIC- PROCESSING PROTEASE 7
 
Molecule 2 - SER-PRO-GLY-GLU-GLY-PRO-SER-GLY
    Chains: B
    Engineered: YES
    Organism Scientific: HUMAN HERPESVIRUS 8
    Organism Taxid: 37296
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1GOL1Ligand/IonGLYCEROL

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWARELYS A:161 , GLU A:162 , ASN A:163 , ASP A:164 , HOH A:414 , HOH A:424 , HOH A:431 , PRO B:49 , GLY B:51binding site for residue GOL A 301

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 4YSI)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4YSI)

(-) Sequences/Alignments

Asymmetric/Biological 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:138
                                                                                                                                                                          
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------ SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------ CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------ Pfam domains
         Sec.struct. author .....eeeeeeee.hhhhh...ee...eee..eeeeeeeeee....eeeeeeee.........eeeeeeeeee....hhhhheeeeeeeeee....eeeeeeeeehhhhh...........eeeeeeeee........ Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------ PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 4ysi A  63 TSWRSEATFQFTVERFSRLSESVLSPPCFVRNLPWKIMVMPRFYQKSVGFFLQCNAESDSTSWSCHAQAVLKIINYRDDEKSFSRRISHLFFHKENDWGFSNFMAWSEVTDPEKGFIDDDKVTFEVFVQADAPHGVAW 205
                                    72        82        92       102   ||  117       127       137       147       157       167       177       187       197        
                                                                     106|                                                                                             
                                                                      112                                                                                             


Chain B from PDB  Type:PROTEIN  Length:8
                                        
               SCOP domains -------- SCOP domains
               CATH domains -------- CATH domains
               Pfam domains -------- Pfam domains
         Sec.struct. author ...ee... Sec.struct. author
                 SAPs(SNPs) -------- SAPs(SNPs)
                    PROSITE -------- PROSITE
                 Transcript -------- Transcript
                 4ysi B  44 SPGEGPSG  51
   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 4YSI)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (40, 41)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

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

UniProtKB/Swiss-Prot
        UBP7_HUMAN | Q93009: 1nb8 1nbf 1yy6 1yze 2f1w 2f1x 2f1y 2f1z 2foj 2foo 2fop 2kvr 2xxn 2ylm 3mqr 3mqs 4jjq 4kg9 4m5w 4m5x 4pyz 4wph 4wpi 4yoc 4z96 4z97 5c56 5c6d 5fwi 5gg4 5j7t 5jtj 5jtv
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(-) Related Entries Specified in the PDB File

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