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(-) Description

Title :  CRYSTAL STRUCTURE OF DJ-1 WITH ZINC(II) BOUND (CRYSTAL I)
 
Authors :  S. Tashiro, C. -X. Wu, Q. Q. Hoang, J. M. M. Caaveiro, K. Tsumoto
Date :  06 Mar 14  (Deposition) - 09 Apr 14  (Release) - 23 Sep 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.75
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Parkinson'S Disease, Oxidation, Hydrolase (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Tashiro, J. M. Caaveiro, C. X. Wu, Q. Q. Hoang, K. Tsumoto
Thermodynamic And Structural Characterization Of The Specific Binding Of Zn(Ii) To Human Protein Dj-1.
Biochemistry V. 53 2218 2014
PubMed-ID: 24697266  |  Reference-DOI: 10.1021/BI500294H

(-) Compounds

Molecule 1 - PROTEIN DJ-1
    Chains: A
    EC Number: 3.4.-.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PLASMID
    Gene: PARK7
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: ONCOGENE DJ1, PARKINSON DISEASE PROTEIN 7

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric Unit (3, 3)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2GOL1Ligand/IonGLYCEROL
3ZN1Ligand/IonZINC ION
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1CL-1Ligand/IonCHLORIDE ION
2GOL2Ligand/IonGLYCEROL
3ZN-1Ligand/IonZINC ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:18 , CYS A:106 , HOH A:357 , HOH A:430binding site for residue ZN A 201
2AC2SOFTWAREARG A:48 , ASN A:76 , GLY A:120 , HOH A:350binding site for residue CL A 202
3AC3SOFTWAREGLU A:116 , PRO A:127 , LEU A:128 , LYS A:130 , ASP A:131 , HOH A:324 , HOH A:332binding site for residue GOL A 203

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4P35)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric Unit
No.Residues
1Gly A:65 -Pro A:66

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4P35)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4P35)

(-) Exons   (0, 0)

(no "Exon" information available for 4P35)

(-) 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:187
                                                                                                                                                                                                                           
               SCOP domains d4p35a_ A: DJ-1                                                                                                                                                                             SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee....hhhhhhhhhhhhhhh..eeeeee......ee.....ee...eehhhhhhhh...eeee..hhhhhhhhhhhhhhhhhhhhhhhh..eeeee...hhhhhhh......ee..hhhhhhhhh.....ee....eeee..eeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4p35 A   2 ASKRALVILAKGAEEMETVIPVDVMRRAGIKVTVAGLAGKDPVQCSRDVVICPDASLEDAKKEGPYDVVVLPGGNLGAQNLSESAAVKEILKEQENRKGLIAAICAGPTALLAHEIGFGSKVTTHPLAKDKMMNGGHYTYSENRVEKDGLILTSRGPGTSFEFALAIVEALNGKEVAAQVKAPLVLK 188
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181
   Legend:   → Mismatch (orange background)
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  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (1, 1)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4P35)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4P35)

(-) Gene Ontology  (136, 136)

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  4p35
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  PARK7_HUMAN | Q99497
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  3.4.-.-
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 Related Entries

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

UniProtKB/Swiss-Prot
        PARK7_HUMAN | Q99497: 1j42 1p5f 1pdv 1pdw 1pe0 1q2u 1soa 1ucf 2or3 2r1t 2r1u 2r1v 2rk3 2rk4 2rk6 3b36 3b38 3b3a 3bwe 3cy6 3cyf 3cz9 3cza 3ezg 3f71 3sf8 4bte 4mnt 4mtc 4n0m 4n12 4ogf 4oq4 4p2g 4p34 4p36 4rkw 4rky 4s0z 4zgg 5ip5 5sy6 5sy9 5sya

(-) Related Entries Specified in the PDB File

4p2g 4p34 4p36