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(-) Description

Title :  CRYSTAL STRUCTURE OF THE USP7/HAUSP CATALYTIC DOMAIN
 
Authors :  A. D. Mesecar, K. L. Molland, Q. Zhou
Date :  08 Aug 13  (Deposition) - 12 Mar 14  (Release) - 24 Sep 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.19
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (1x)
Biol. Unit 2:  B  (1x)
Keywords :  Ubiquitin-Specific Cysteine Protease, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  K. Molland, Q. Zhou, A. D. Mesecar
A 2. 2 Angstrom Resolution Structure Of The Usp7 Catalytic Domain In A New Space Group Elaborates Upon Structural Rearrangements Resulting From Ubiquitin Binding.
Acta Crystallogr F Struct V. 70 283 2014 Biol Commun
PubMed-ID: 24598911  |  Reference-DOI: 10.1107/S2053230X14002519

(-) Compounds

Molecule 1 - UBIQUITIN CARBOXYL-TERMINAL HYDROLASE 7
    ChainsA, B
    EC Number3.4.19.12
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System Taxid562
    FragmentCATALYTIC DOMAIN (UNP RESIDUES 207-560)
    GeneUSP7, HAUSP
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymUSP7, HAUSP, DEUBIQUITINATING ENZYME 7, HERPESVIRUS- ASSOCIATED UBIQUITIN-SPECIFIC PROTEASE, UBIQUITIN THIOESTERASE 7, UBIQUITIN-SPECIFIC-PROCESSING PROTEASE 7

 Structural Features

(-) Chains, Units

  12
Asymmetric Unit AB
Biological Unit 1 (1x)A 
Biological Unit 2 (1x) B

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 3)

Asymmetric Unit (1, 3)
No.NameCountTypeFull Name
1BR3Ligand/IonBROMIDE ION
Biological Unit 1 (0, 0)
No.NameCountTypeFull Name
1BR-1Ligand/IonBROMIDE ION
Biological Unit 2 (0, 0)
No.NameCountTypeFull Name
1BR-1Ligand/IonBROMIDE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:787 , HOH A:798BINDING SITE FOR RESIDUE BR A 601
2AC2SOFTWAREGLN A:219 , GLY A:275 , LYS A:277BINDING SITE FOR RESIDUE BR A 602
3AC3SOFTWAREGLN B:219 , GLY B:275 , LYS B:277BINDING SITE FOR RESIDUE BR B 601

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4M5X)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Asp B:416 -Gln B:417

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4M5X)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4M5X)

(-) Exons   (0, 0)

(no "Exon" information available for 4M5X)

(-) 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:339
                                                                                                                                                                                                                                                                                                                                                                                   
               SCOP domains d4m5xa_ A: automated matches                                                                                                                                                                                                                                                                                                                        SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...............hhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhh.....hhhhhhhhh..........hhhhhhhhhhhhhhhhhh.....hhhhhhhheeeeeeeee.....eeeeeeee..eee......hhhhhhhhhh..eeehhhhhee.hhh.ee.eeeeeeeee...eeeeee..ee........ee.........eee.hhhh.........eeeeeeeeeee......eeeeee.......eeeee..eeeeehhhhhhhhhh.....eeeeeeeeee..hhhhhh...hhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4m5x A 209 KHTGYVGLKNQGATCYMNSLLQTLFFTNQLRKAVYMMPTEGDDSSKSVPLALQRVFYELQHSDKPVGTKKLTKSFGWETLDSFMQHDVQELCRVLLDNVENKMKGTCVEGTIPKLFRGKMVSYIQCKEVDYRSDRREDYYDIQLSIKGKKNIFESFVDYVAVEQLDGDNKYDAGEHGLQEAEKGVKFLTLPPVLHLQLMRFMYDPQTDQNIKINDRFEFPEQLPLDEFLQKTDPKDPANYILHAVLVHSGDNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHHCTNAYMLVYIRESKLSEVLQAVTDHDIPQQLVERLQEEKRIEAQK 554
                                   218       228       238       248       258       268       278       288       298       308       318       328       338       348       358       368       378       388       398       408       418       428       438       448       458       468       478       488       498  ||   515       525       535       545         
                                                                                                                                                                                                                                                                                                                              501|                                             
                                                                                                                                                                                                                                                                                                                               509                                             

Chain B from PDB  Type:PROTEIN  Length:337
                                                                                                                                                                                                                                                                                                                                                                                 
               SCOP domains d4m5xb_ B: automated matches                                                                                                                                                                                                                                                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ................hhhhhhhhhhhhhhhhhhhhhh.........hhhhhhhhhhhhhhhh.....hhhhhhhhh..........hhhhhhhhhhhhhhhhhh.....hhhhhhhheeeeeeeee.....eeeeeeee..eee......hhhhhhhhhh..eeehhhhhee.hhh.ee.eeeeeeeee...eeeeee..eee...eee.........eee.hhhh.........eeeeeeeeeee......eeeeee........eeee..eeee.hhhhhhhhhh.....eeeeeeeeee..hhhhhh...hhhhhhhhhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4m5x B 208 KKHTGYVGLKNQGATCYMNSLLQTLFFTNQLRKAVYMMPTEGDDSSKSVPLALQRVFYELQHSDKPVGTKKLTKSFGWETLDSFMQHDVQELCRVLLDNVENKMKGTCVEGTIPKLFRGKMVSYIQCKEVDYRSDRREDYYDIQLSIKGKKNIFESFVDYVAVEQLDGDNKYDAGEHGLQEAEKGVKFLTLPPVLHLQLMRFMYDDQNIKINDRFEFPEQLPLDEFLQKTDPKDPANYILHAVLVHSGDNHGGHYVVYLNPKGDGKWCKFDDDVVSRCTKEEAIEHNYGGHHCTNAYMLVYIRESKLSEVLQAVTDHDIPQQLVERLQEEKRIEAQK 554
                                   217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407    || 420       430       440       450       460       470       480       490       500||     517       527       537       547       
                                                                                                                                                                                                                                      412|                                                                                  501|                                             
                                                                                                                                                                                                                                       416                                                                                   509                                             

   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
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  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  (1, 2)

Asymmetric Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4M5X)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4M5X)

(-) Gene Ontology  (30, 30)

Asymmetric Unit(hide GO term definitions)

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  UBP7_HUMAN | Q93009
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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 | Q930091nb8 1nbf 1yy6 1yze 2f1w 2f1x 2f1y 2f1z 2foj 2foo 2fop 2kvr 2xxn 2ylm 3mqr 3mqs 4jjq 4kg9 4m5w 4pyz 4wph 4wpi 4yoc 4ysi 4z96 4z97 5c56 5c6d 5fwi 5gg4 5j7t 5jtj 5jtv

(-) Related Entries Specified in the PDB File

4m5w