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(-) Description

Title :  CRYSTAL STRUCTURE OF THE DISULFIDE BOND ISOMERASE DSBG
 
Authors :  B. Heras, M. A. Edeling, H. J. Schirra, S. Raina, J. L. Martin
Date :  21 Nov 03  (Deposition) - 29 Jun 04  (Release) - 24 Feb 09  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.00
Chains :  Asym. Unit :  A,B
Biol. Unit 1:  A  (2x)
Biol. Unit 2:  B  (2x)
Keywords :  Oxidized Dsbg, Redox Protein, Protein Disulfide Isomerase, Thioredoxin Fold, Strained Redox-Active Center (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  B. Heras, M. A. Edeling, H. J. Schirra, S. Raina, J. L. Martin
Crystal Structures Of The Dsbg Disulfide Isomerase Reveal An Unstable Disulfide
Proc. Natl. Acad. Sci. Usa V. 101 8876 2004
PubMed-ID: 15184683  |  Reference-DOI: 10.1073/PNAS.0402769101
(for further references see the PDB file header)

(-) Compounds

Molecule 1
    Chains: A, B
    Engineered: YES
    Expression System: ESCHERICHIA COLI BL21(DE3)
    Expression System Plasmid: PET42B
    Expression System Strain: BL21 (DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: DSBG
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 562
    Synonym: DSBG DISULFIDE BOND ISOMERASE

 Structural Features

(-) Chains, Units

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

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 4)

Asymmetric Unit (1, 4)
No.NameCountTypeFull Name
1SO44Ligand/IonSULFATE ION
Biological Unit 1 (1, 4)
No.NameCountTypeFull Name
1SO44Ligand/IonSULFATE ION
Biological Unit 2 (1, 4)
No.NameCountTypeFull Name
1SO44Ligand/IonSULFATE ION

(-) Sites  (4, 4)

Asymmetric Unit (4, 4)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:49 , ASN A:57 , LEU A:63 , HOH A:1308 , HOH A:1355BINDING SITE FOR RESIDUE SO4 A 2001
2AC2SOFTWARESER A:152 , LYS A:153 , ASN A:172 , HOH A:1097 , LYS B:170BINDING SITE FOR RESIDUE SO4 A 2002
3AC3SOFTWARELYS A:170 , SER B:152 , LYS B:153 , HOH B:1140 , HOH B:1210BINDING SITE FOR RESIDUE SO4 B 2003
4AC4SOFTWAREHIS B:49 , ASN B:57 , LEU B:63 , HOH B:1052 , HOH B:1127BINDING SITE FOR RESIDUE SO4 B 2004

(-) SS Bonds  (1, 1)

Asymmetric Unit
No.Residues
1A:109 -A:112

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Thr A:200 -Pro A:201
2Thr B:200 -Pro B:201

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1V57)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 1V57)

(-) Exons   (0, 0)

(no "Exon" information available for 1V57)

(-) 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:229
 aligned with DSBG_ECOLI | P77202 from UniProtKB/Swiss-Prot  Length:248

    Alignment length:229
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238         
           DSBG_ECOLI    19 ELPAPVKAIEKQGITIIKTFDAPGGMKGYLGKYQDMGVTIYLTPDGKHAISGYMYNEKGENLSNTLIEKEIYAPAGREMWQRMEQSHWLLDGKKDAPVIVYVFADPFCPYCKQFWQQARPWVDSGKVQLRTLLVGVIKPESPATAAAILASKDPAKTWQQYEASGGKLKLNVPANVSTEQMKVLSDNEKLMDDLGANVTPAIYYMSKENTLQQAVGLPDQKTLNIIMGN 247
               SCOP domains d1v57a2 A:2-61                                              d1v57a1 A:62-230 Thiol:disulfide interchange protein DsbG, C-terminal domain                                                                                              SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..hhhhhhhhh..eeeeeeee.....eeeeeee..eeeeeee......eee.........hhhhhhhhhhh.hhhhhhhhhhhhh...eee......eeeeeee...hhhhhhhhhhhhhhhhh..eeeeeee......hhhhhhhhhhhh.hhhhhhhhhhhh............hhhhhhhhhhhhhhhhhh......eeeeee...eeeeee...hhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v57 A   2 ELPAPVKAIEKQGITIIKTFDAPGGMKGYLGKYQDMGVTIYLTPDGKHAISGYMYNEKGENLSNTLIEKEIYAPAGREMWQRMEQSHWLLDGKKDAPVIVYVFADPFCPYCKQFWQQARPWVDSGKVQLRTLLVGVIKPESPATAAAILASKDPAKTWQQYEASGGKLKLNVPANVSTEQMKVLSDNEKLMDDLGANVTPAIYYMSKENTLQQAVGLPDQKTLNIIMGN 230
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221         


Chain B from PDB  Type:PROTEIN  Length:229
 aligned with DSBG_ECOLI | P77202 from UniProtKB/Swiss-Prot  Length:248

    Alignment length:229
                                    28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228       238         
           DSBG_ECOLI    19 ELPAPVKAIEKQGITIIKTFDAPGGMKGYLGKYQDMGVTIYLTPDGKHAISGYMYNEKGENLSNTLIEKEIYAPAGREMWQRMEQSHWLLDGKKDAPVIVYVFADPFCPYCKQFWQQARPWVDSGKVQLRTLLVGVIKPESPATAAAILASKDPAKTWQQYEASGGKLKLNVPANVSTEQMKVLSDNEKLMDDLGANVTPAIYYMSKENTLQQAVGLPDQKTLNIIMGN 247
               SCOP domains d1v57b2 B:2-61                                              d1v57b1 B:62-230 Thiol:disulfide interchange protein DsbG, C-terminal domain                                                                                              SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
           Pfam domains (1) -------------------------------------------------------------------------------------------Thioredoxin_2-1v57B01 B:93-228                                                                                                          -- Pfam domains (1)
           Pfam domains (2) -------------------------------------------------------------------------------------------Thioredoxin_2-1v57B02 B:93-228                                                                                                          -- Pfam domains (2)
         Sec.struct. author ..hhhhhhhhh..eeeeeeee.....eeeeeee..eeeeeee......eee.........hhhhhhhhhhhhhhhhhhhhhhhhh...eee......eeeeeee...hhhhhhhhhhhhhhhh...eeeeeee......hhhhhhhhhhhh.hhhhhhhhhhhh............hhhhhhhhhhhhhhhhhh......eeeee.....eeeee...hhhhhhhhh.. Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 1v57 B   2 ELPAPVKAIEKQGITIIKTFDAPGGMKGYLGKYQDMGVTIYLTPDGKHAISGYMYNEKGENLSNTLIEKEIYAPAGREMWQRMEQSHWLLDGKKDAPVIVYVFADPFCPYCKQFWQQARPWVDSGKVQLRTLLVGVIKPESPATAAAILASKDPAKTWQQYEASGGKLKLNVPANVSTEQMKVLSDNEKLMDDLGANVTPAIYYMSKENTLQQAVGLPDQKTLNIIMGN 230
                                    11        21        31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201       211       221
   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  (2, 4)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a+b) (23004)
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 1V57)

(-) Pfam Domains  (1, 2)

Asymmetric Unit
(-)
Clan: Thioredoxin (367)

(-) Gene Ontology  (4, 4)

Asymmetric Unit(hide GO term definitions)
Chain A,B   (DSBG_ECOLI | P77202)
molecular function
    GO:0003756    protein disulfide isomerase activity    Catalysis of the rearrangement of both intrachain and interchain disulfide bonds in proteins.
    GO:0015035    protein disulfide oxidoreductase activity    Catalysis of the reaction: a protein with reduced sulfide groups = a protein with oxidized disulfide bonds.
biological process
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
    GO:0042597    periplasmic space    The region between the inner (cytoplasmic) and outer membrane (Gram-negative Bacteria) or cytoplasmic membrane and cell wall (Fungi and Gram-positive Bacteria).

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  1v57
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  DSBG_ECOLI | P77202
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 Related Entries

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

UniProtKB/Swiss-Prot
        DSBG_ECOLI | P77202: 1v58 2h0g 2h0h 2h0i 2iy2 5g1k 5g1l

(-) Related Entries Specified in the PDB File

1v58 REDUCED DSBG AT 1.7 ANGSTROM RESOLUTION