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(-) Description

Title :  CRYSTAL STRUCTURE OF THE B'-A' DOMAIN OF OXIDIZED PROTEIN DISULFIDE ISOMERASE COMPLEXED WITH ALPHA-SYNUCLEIN PEPTIDE (31-41)
 
Authors :  M. Yagi-Utsumi, T. Satoh, K. Kato
Date :  23 Jul 15  (Deposition) - 09 Sep 15  (Release) - 23 Sep 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.60
Chains :  Asym./Biol. Unit :  A,B
Keywords :  Thioredoxin Fold, Isomerase, Disulfide Bond, Endoplasmic Reticulum, Thioredoxin, Oxidoreductase, Isomerase-Metal Binding Protein Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Yagi-Utsumi, T. Satoh, K. Kato
Structural Basis Of Redox-Dependent Substrate Binding Of Protein Disulfide Isomerase. Titl: Structural Basis Of Redox-Dependent Substrate Binding Of Protein Disulfide Isomerase. 5Czy
Sci Rep V. 5 13909 2015
PubMed-ID: 26350503  |  Reference-DOI: 10.1038/SREP13909

(-) Compounds

Molecule 1 - PROTEIN DISULFIDE-ISOMERASE
    Chains: A
    EC Number: 5.3.4.1
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Fragment: UNP RESIDUES 228-469
    Organism Common: SOFT-ROT FUNGUS
    Organism Scientific: HUMICOLA INSOLENS
    Organism Taxid: 34413
    Synonym: PDI
 
Molecule 2 - PEPTIDE FROM ALPHA-SYNUCLEIN
    Chains: B
    Engineered: YES
    Organism Common: HUMAN
    Organism Scientific: HOMO SAPIENS
    Organism Taxid: 9606
    Synthetic: YES

 Structural Features

(-) Chains, Units

  12
Asymmetric/Biological Unit : AB

Summary Information (see also Sequences/Alignments below)

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

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

(-) Sites  (0, 0)

(no "Site" information available for 5CRW)

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:365 -A:368

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Phe A:281 -Pro A:282
2Phe A:410 -Pro A:411

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 5CRW)

(-) 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:242
                                                                                                                                                                                                                                                                                  
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eee....hhhhhhhh...eeeeee.hhhhhhhhhhhhhhhhhhh....eeeeee...hhhhhhhhh.......eeeeee....eeee.......hhhhhhhhhhhhhhh...................eeehhhhhhhhhh....eeeeeee...hhhhhhhhhhhhhhhhhhhh......eeeeeee..............eeeee........ee.....hhhhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 5crw A 208 PLIGEIGPETYSDYMSAGIPLAYIFAETAEERKELSDKLKPIAEAQRGVINFGTIDAKAFGAHAGNLNLKTDKFPAFAIQEVAKNQKFPFDQEKEITFEAIKAFVDDFVAGKIEPSIKSEPIPEKQEGPVTVVVAKNYNEIVLDDTKDVLIEFYAPWCGHCKALAPKYEELGALYAKSEFKDRVVIAKVDATANDVPDEIQGFPTIKLYPAGAKGQPVTYSGSRTVEDLIKFIAENGKYKAA 449
                                   217       227       237       247       257       267       277       287       297       307       317       327       337       347       357       367       377       387       397       407       417       427       437       447  


Chain B from PDB  Type:PROTEIN  Length:11
                                           
               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
                 5crw B  31 GKTKEGVLYVG  41
                                    40
   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 5CRW)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (140, 142)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Phe A:281 - Pro A:282   [ RasMol ]  
    Phe A:410 - Pro A:411   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        PDI_HUMIN | P55059: 2djj 2djk 2kp1 2kp2 2rue 2ruf 3wt1 3wt2
        SYUA_HUMAN | P37840: 1xq8 2jn5 2kkw 2m55 2n0a 2x6m 3q25 3q26 3q27 3q28 3q29 4bxl 4r0u 4r0w 4rik 4ril 4znn

(-) Related Entries Specified in the PDB File

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