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(-) Description

Title :  CRYSTAL STRUCTURE OF USP7 IN COMPLEX WITH UHRF1
 
Authors :  Z. -M. Zhang, J. Song
Date :  22 Jun 15  (Deposition) - 09 Sep 15  (Release) - 16 Sep 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.29
Chains :  Asym. Unit :  A,B,C,D
Biol. Unit 1:  A,C  (1x)
Biol. Unit 2:  B,D  (1x)
Keywords :  Usp7, Uhrf1, Hydrolase-Ligase Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  Z. M. Zhang, S. B. Rothbart, D. F. Allison, Q. Cai, J. S. Harrison, L. Li, Y. Wang, B. D. Strahl, G. G. Wang, J. Song
An Allosteric Interaction Links Usp7 To Deubiquitination An Chromatin Targeting Of Uhrf1.
Cell Rep V. 12 1400 2015
PubMed-ID: 26299963  |  Reference-DOI: 10.1016/J.CELREP.2015.07.046

(-) Compounds

Molecule 1 - UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 7
    Chains: A, B
    EC Number: 3.4.19.12
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 561-881
    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 - E3 UBIQUITIN-PROTEIN LIGASE UHRF1
    Chains: C, D
    EC Number: 6.3.2.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Fragment: UNP RESIDUES 634-665
    Gene: UHRF1, ICBP90, NP95, RNF106
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: INVERTED CCAAT BOX-BINDING PROTEIN OF 90 KDA,NUCLEAR PROTEIN 95,NUCLEAR ZINC FINGER PROTEIN NP95,HNP95,RING FINGER PROTEIN 106, TRANSCRIPTION FACTOR ICBP90,UBIQUITIN-LIKE PHD AND RING FINGER DOMAIN-CONTAINING PROTEIN 1,HUHRF1,UBIQUITIN-LIKE-CONTAINING PHD AND RING FINGER DOMAINS PROTEIN 1

 Structural Features

(-) Chains, Units

  1234
Asymmetric Unit : ABCD
Biological Unit 1 (1x): A C 
Biological Unit 2 (1x):  B D

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 5C6D)

(-) Sites  (0, 0)

(no "Site" information available for 5C6D)

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 5C6D)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Asn A:656 -Pro A:657
2Asn B:656 -Pro B:657

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 5C6D)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5C6D)

(-) Exons   (0, 0)

(no "Exon" information available for 5C6D)

(-) 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:311
                                                                                                                                                                                                                                                                                                                                                       
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeeeehhhhh............eeeeeeeeee...hhhhhhhhhhhhhh.hhh.eeeeeeee.....eee........hhhhhh.....eeeeeee............eeeeeeeeee....eeeeeeeeeee....hhhhhhhhhhhhh......eeeeeeee..eeee......hhhhhh......eeeeeee.hhhhhhh...hhhhhhhhhhheeeeeeee........eeeeee...hhhhhhhhhhhhh..hhh.eeee...................hhhhhhh........eeeeee. Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5c6d A 561 AHLYMQVQIVAEDQFCGHQGNDMYDEEKVKYTVFKVLKNSSLAEFVQSLSQTMGFPQDQIRLWPMQARSNGTKRPAMLADGNKTMIELSDNENPWTIFLETVDPTLPKFDKDHDVMLFLKMYDPKTRSLNYCGHIYTPISCKIRDLLPVMCDRAGFIQDTSLILYEEVKPNLTERIQDYDVSLDKALDELMDGDIIVFQKDDPENDNSELPTAKEYFRDLYHRVDVIFCDKTIPNDPGFVVTLSNRMNYFQVAKTVAQRLNTDPMLLQFFKSQGYRDGPGNPLRHNYEGTLRDLLQFFKPRQPKKLYYQQL 881
                                   570       580       590       600       610       620       630       643       653       663   ||  680       690       700       710       720       730       740       750       760       770       780       790       800       810       820       830       840       850       860       870       880 
                                                                                                       638|                      667|                                                                                                                                                                                                              
                                                                                                        642                       675                                                                                                                                                                                                              


Chain B from PDB  Type:PROTEIN  Length:313
                                                                                                                                                                                                                                                                                                                                                         
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhh.eeeeeeehhhhh............eeeeeeeeee...hhhhhhhhhhhhhh.hhh.eeeeeeee.....eee.......hhhhhh.....eeeeeee.hhhhh.............eeeeeeeeee....eeeeeeeeeee...hhhhhhhhhhhhh.......eeeeeeee..eeee......hhhhhh......eeeeeee.hhhhhhh...hhhhhhhhhhheeeeeeee........eeeeee...hhhhhhhhhhhhhh.hhh.eeee...............hhhhhh.......eeeeeee. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5c6d B 560 SAHLYMQVQIVAEDQFCGHQGNDMYDEEKVKYTVFKVLKNSSLAEFVQSLSQTMGFPQDQIRLWPMQARSNGTKRPAMLDGNKTMIELSDNENPWTIFLETVDPELAASGATLPKFDKDHDVMLFLKMYDPKTRSLNYCGHIYTPISCKIRDLLPVMCDRAGFIQDTSLILYEEVKPNLTERIQDYDVSLDKALDELMDGDIIVFQKDDPENDNSELPTAKEYFRDLYHRVDVIFCDKTIPNDPGFVVTLSNRMNYFQVAKTVAQRLNTDPMLLQFFKSQGPGNPLRHNYEGTLRDLLQFFKPQPKKLYYQQL 881
                                   569       579       589       599       609       619       629       643       653       663       673       683       693       703       713       723       733       743       753       763       773       783       793       803       813       823       833       843|      857       867  ||   878   
                                                                                                        638|                                                                                                                                                                                                     843|                   870|         
                                                                                                         643                                                                                                                                                                                                      848                    872         


Chain C from PDB  Type:PROTEIN  Length:13
                                             
               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
                 5c6d C 652 SPRTGKGKWKRKS 664
                                   661   


Chain D 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
                 5c6d D 656 GKGKWKR 662
   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 5C6D)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5C6D)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5C6D)

(-) Gene Ontology  (64, 69)

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  Cis Peptide Bonds
    Asn A:656 - Pro A:657   [ RasMol ]  
    Asn B:656 - Pro B:657   [ RasMol ]  
 
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  5c6d
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  UBP7_HUMAN | Q93009
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  UHRF1_HUMAN | Q96T88
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  3.4.19.12
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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 4ysi 4z96 4z97 5c56 5fwi 5gg4 5j7t 5jtj 5jtv
        UHRF1_HUMAN | Q96T88: 2faz 2l3r 2lgg 2lgk 2lgl 2pb7 3ask 3asl 3bi7 3clz 3db3 3db4 3dwh 3fl2 3shb 3sou 3sow 3sox 3t6r 3zvy 3zvz 4gy5 4qqd 5iay

(-) Related Entries Specified in the PDB File

(no "Related Entries Specified in the PDB File" available for 5C6D)