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(-) Description

Title :  ATOMIC RESOLUTION STRUCTURE OF HUMAN DJ-1, DTT BOUND
 
Authors :  M. A. Wilson, J. Lin
Date :  10 Aug 16  (Deposition) - 28 Dec 16  (Release) - 01 Feb 17  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.15
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Dj-1/Pfpi Superfamily Oxidative Stress Nucleophile Elbow, Hydrolase, Protein Binding (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  J. Lin, E. Pozharski, M. A. Wilson
Short Carboxylic Acid-Carboxylate Hydrogen Bonds Can Have Fully Localized Protons.
Biochemistry V. 56 391 2017
PubMed-ID: 27989121  |  Reference-DOI: 10.1021/ACS.BIOCHEM.6B00906

(-) Compounds

Molecule 1 - PROTEIN DEGLYCASE DJ-1
    Chains: A
    EC Number: 3.1.2.-, 3.5.1.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET15B
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: PARK7
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synonym: DJ-1,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  (1, 1)

Asymmetric Unit (1, 1)
No.NameCountTypeFull Name
1DTT1Ligand/Ion2,3-DIHYDROXY-1,4-DITHIOBUTANE
Biological Unit 1 (1, 2)
No.NameCountTypeFull Name
1DTT2Ligand/Ion2,3-DIHYDROXY-1,4-DITHIOBUTANE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:76 , ALA A:107 , GLU A:116 , LEU A:128 , ALA A:129 , LYS A:132 , HOH A:304 , HOH A:310 , HOH A:406binding site for residue DTT A 201

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1A:53 -A:53

(-) Cis Peptide Bonds  (1, 2)

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 5SY6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 5SY6)

(-) Exons   (0, 0)

(no "Exon" information available for 5SY6)

(-) Sequences/Alignments

Asymmetric Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
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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 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeeee....hhhhhhhhhhhhhhh..eeeeee......ee.....ee...eehhhhhhhh...eeee..hhhhhhhhhhhhhhhhhhhhhhhh..eeeee..hhhhhhhh......ee..hhhhhhhhh.....ee....eeee..eeee.hhhhhhhhhhhhhhhhhhhhhhhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5sy6 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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  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 5SY6)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 5SY6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 5SY6)

(-) Gene Ontology  (136, 136)

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  5sy6
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  PARK7_HUMAN | Q99497
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  3.1.2.-
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  3.5.1.-
    General Enzyme Information: BRENDA | EC-PDB | Enzyme | IntEnz
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  PARK7_HUMAN | Q99497
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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 4p35 4p36 4rkw 4rky 4s0z 4zgg 5ip5 5sy9 5sya

(-) Related Entries Specified in the PDB File

5sy4 5sy9 5sya