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(-) Description

Title :  CRYSTAL STRUCTURE OF THE F495L MUTANT XIAP RING DOMAIN
 
Authors :  Y. Nakatani, C. L. Day
Date :  09 Dec 12  (Deposition) - 19 Dec 12  (Release) - 10 Jul 13  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.78
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Ring Domain, Zinc-Finger, E3 Ligase, Ligase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  Y. Nakatani, T. Kleffmann, K. Linke, S. M. Condon, M. G. Hinds, C. L. Day
Regulation Of Ubiquitin Transfer By Xiap, A Dimeric Ring E3 Ligase
Biochem. J. V. 450 629 2013
PubMed-ID: 23259674  |  Reference-DOI: 10.1042/BJ20121702

(-) Compounds

Molecule 1 - E3 UBIQUITIN-PROTEIN LIGASE XIAP
    ChainsA, B
    EC Number6.3.2.-
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPGEX6P3
    Expression System StrainBL21(DE3)
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentRING DOMAIN, UNP RESIDUES 429-497
    GeneAPI3, BIR4, IAP3, XIAP
    MutationYES
    Organism CommonHUMAN
    Organism ScientificHOMO SAPIENS
    Organism Taxid9606
    SynonymBACULOVIRAL IAP REPEAT-CONTAINING PROTEIN 4, IAP-LIKE PROTEIN, ILP, HILP, INHIBITOR OF APOPTOSIS PROTEIN 3, IAP-3, HIAP-3, HIAP3, X-LINKED INHIBITOR OF APOPTOSIS PROTEIN, X-LINKED IAP

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit AB

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 6)

Asymmetric/Biological Unit (2, 6)
No.NameCountTypeFull Name
1NI2Ligand/IonNICKEL (II) ION
2ZN4Ligand/IonZINC ION

(-) Sites  (6, 6)

Asymmetric Unit (6, 6)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:450 , CYS A:453 , CYS A:471 , CYS A:474BINDING SITE FOR RESIDUE ZN A 1001
2AC2SOFTWARECYS A:465 , HIS A:467 , CYS A:481 , CYS A:484BINDING SITE FOR RESIDUE ZN A 1002
3AC3SOFTWAREASP A:455 , HOH A:1118 , HOH A:1120 , HOH A:1145BINDING SITE FOR RESIDUE NI A 1003
4AC4SOFTWARECYS B:450 , CYS B:453 , CYS B:471 , CYS B:474BINDING SITE FOR RESIDUE ZN B 1001
5AC5SOFTWARECYS B:465 , HIS B:467 , CYS B:481 , CYS B:484BINDING SITE FOR RESIDUE ZN B 1002
6AC6SOFTWAREASP B:455 , HOH B:1130 , HOH B:1144 , HOH B:1148 , HOH B:1149BINDING SITE FOR RESIDUE NI B 1003

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4IC3)

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Val A:463 -Pro A:464
2Val B:463 -Pro B:464

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4IC3)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4IC3)

(-) Exons   (0, 0)

(no "Exon" information available for 4IC3)

(-) 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:63
                                                                                               
               SCOP domains --------------------------------------------------------------- SCOP domains
               CATH domains --------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhh...........eeee.......hhhhhh.............eeee... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------- Transcript
                 4ic3 A 434 EISTEEQLRRLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMCYTVITFKQKILM 496
                                   443       453       463       473       483       493   

Chain B from PDB  Type:PROTEIN  Length:64
                                                                                                
               SCOP domains ---------------------------------------------------------------- SCOP domains
               CATH domains ---------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhhhhhh...........eeee.......hhhhhh.............eeee.... Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ---------------------------------------------------------------- PROSITE
                 Transcript ---------------------------------------------------------------- Transcript
                 4ic3 B 434 EISTEEQLRRLQEEKLCKICMDRNIAIVFVPCGHLVTCKQCAEAVDKCPMCYTVITFKQKILMS 497
                                   443       453       463       473       483       493    

   Legend:   → Mismatch (orange background)
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    → 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 4IC3)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4IC3)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4IC3)

(-) Gene Ontology  (32, 32)

Asymmetric/Biological Unit(hide GO term definitions)

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  XIAP_HUMAN | P98170
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 Related Entries

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

UniProtKB/Swiss-Prot
        XIAP_HUMAN | P981701c9q 1f9x 1g3f 1g73 1i3o 1i4o 1i51 1kmc 1nw9 1tfq 1tft 2ecg 2jk7 2kna 2opy 2opz 2poi 2pop 2qra 2vsl 3clx 3cm2 3cm7 3eyl 3g76 3hl5 3uw4 3uw5 4ec4 4hy0 4ic2 4j3y 4j44 4j45 4j46 4j47 4j48 4kju 4kjv 4kmp 4mtz 4oxc 4wvs 4wvt 4wvu 5c0k 5c0l 5c3h 5c3k 5c7a 5c7b 5c7c 5c7d 5c83 5c84 5m6e 5m6f 5m6h 5m6l 5m6m

(-) Related Entries Specified in the PDB File

4ic2