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(-) Description

Title :  CRYSTAL STRUCTURE OF A MUTANT DSBA
 
Authors :  A. Kone, L. Serre
Date :  02 Jun 04  (Deposition) - 03 May 05  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.60
Chains :  Asym./Biol. Unit :  A
Keywords :  Oxidoreductase, Proline, Thiol, Detergent (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  E. Ondo-Mbele, C. Vives, A. Kone, L. Serre
Intriguing Conformation Changes Associated With The Trans/Cis Isomerization Of A Prolyl Residue In The Active Site Of The Dsba C33A Mutant.
J. Mol. Biol. V. 347 555 2005
PubMed-ID: 15755450  |  Reference-DOI: 10.1016/J.JMB.2005.01.049

(-) Compounds

Molecule 1
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Taxid: 562
    Gene: DSBA, PPFA, DSF, B3860, Z5392, ECS4783
    Mutation: YES
    Organism Scientific: ESCHERICHIA COLI
    Organism Taxid: 83334

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1D121Ligand/IonDODECANE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREGLU A:24 , HIS A:32 , ALA A:33 , TYR A:34 , VAL A:39 , ILE A:42 , SER A:43 , MET A:153 , PRO A:163 , PHE A:174 , TYR A:178BINDING SITE FOR RESIDUE D12 A 190

(-) SS Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1A:30 -A:30

(-) Cis Peptide Bonds  (2, 2)

Asymmetric/Biological Unit
No.Residues
1Cys A:30 -Pro A:31
2Val A:150 -Pro A:151

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 1TI1)

(-) PROSITE Motifs  (1, 1)

Asymmetric/Biological Unit (1, 1)
 PROSITEUniProtKBPDB
No.IDACDescriptionIDLocationCountLocation
1THIOREDOXIN_1PS00194 Thioredoxin family active site.DSBA_ECO5741-59  1A:22-40
DSBA_ECOLI41-59  1A:22-40

(-) Exons   (0, 0)

(no "Exon" information available for 1TI1)

(-) 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:186
 aligned with DSBA_ECO57 | P0AEG5 from UniProtKB/Swiss-Prot  Length:208

    Alignment length:186
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201      
           DSBA_ECO57    22 YEDGKQYTTLEKPVAGAPQVLEFFSFFCPHCYQFEEVLHISDNVKKKLPEGVKMTKYHVNFMGGDLGKDLTQAWAVAMALGVEDKVTVPLFEGVQKTQTIRSASDIRDVFINAGIKGEEYDAAWNSFVVKSLVAQQEKAAADVQLRGVPAMFVNGKYQLNPQGMDTSNMDVFVQQYADTVKYLSEK 207
               SCOP domains d1ti1a_ A: Disulfide-bond formation facilitator (DsbA)                                                                                                                                     SCOP domains
               CATH domains 1ti1A00 A:3-188 Glutaredoxin                                                                                                                                                               CATH domains
               Pfam domains ------------------DSBA-1ti1A01 A:21-179                                                                                                                                          --------- Pfam domains
         Sec.struct. author ......eee..........eeeee......hhhhhhhhhhhhhhhh.......eeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeee...eee.........hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                    PROSITE -------------------THIOREDOXIN_1      ---------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1ti1 A   3 YEDGKQYTTLEKPVAGAPQVLEFFSFFCPHAYQFEEVLHISDNVKKKLPEGVKMTKYHVNFMGGDLGKDLTQAWAVAMALGVEDKVTVPLFEGVQKTQTIRSASDIRDVFINAGIKGEEYDAAWNSFVVKSLVAQQEKAAADVQLRGVPAMFVNGKYQLNPQGMDTSNMDVFVQQYADTVKYLSEK 188
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182      


Chain A from PDB  Type:PROTEIN  Length:186
 aligned with DSBA_ECOLI | P0AEG4 from UniProtKB/Swiss-Prot  Length:208

    Alignment length:186
                                    31        41        51        61        71        81        91       101       111       121       131       141       151       161       171       181       191       201      
           DSBA_ECOLI    22 YEDGKQYTTLEKPVAGAPQVLEFFSFFCPHCYQFEEVLHISDNVKKKLPEGVKMTKYHVNFMGGDLGKDLTQAWAVAMALGVEDKVTVPLFEGVQKTQTIRSASDIRDVFINAGIKGEEYDAAWNSFVVKSLVAQQEKAAADVQLRGVPAMFVNGKYQLNPQGMDTSNMDVFVQQYADTVKYLSEK 207
               SCOP domains d1ti1a_ A: Disulfide-bond formation facilitator (DsbA)                                                                                                                                     SCOP domains
               CATH domains 1ti1A00 A:3-188 Glutaredoxin                                                                                                                                                               CATH domains
               Pfam domains ------------------DSBA-1ti1A01 A:21-179                                                                                                                                          --------- Pfam domains
         Sec.struct. author ......eee..........eeeee......hhhhhhhhhhhhhhhh.......eeeee....hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh......hhhhhhhhhhh...hhhhhhhhhhhhhhhhhhhhhhhhhhhh......eeee...eee.........hhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ SAPs(SNPs)
                PROSITE (2) -------------------THIOREDOXIN_1      ---------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------ Transcript
                 1ti1 A   3 YEDGKQYTTLEKPVAGAPQVLEFFSFFCPHAYQFEEVLHISDNVKKKLPEGVKMTKYHVNFMGGDLGKDLTQAWAVAMALGVEDKVTVPLFEGVQKTQTIRSASDIRDVFINAGIKGEEYDAAWNSFVVKSLVAQQEKAAADVQLRGVPAMFVNGKYQLNPQGMDTSNMDVFVQQYADTVKYLSEK 188
                                    12        22        32        42        52        62        72        82        92       102       112       122       132       142       152       162       172       182
   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  (1, 1)

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

(-) CATH Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Class: Alpha Beta (26913)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: Thioredoxin (367)

(-) Gene Ontology  (8, 12)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (DSBA_ECO57 | P0AEG5)
molecular function
    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:0045454    cell redox homeostasis    Any process that maintains the redox environment of a cell or compartment within a cell.
    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).

Chain A   (DSBA_ECOLI | P0AEG4)
molecular function
    GO:0005515    protein binding    Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
    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:0045454    cell redox homeostasis    Any process that maintains the redox environment of a cell or compartment within a cell.
    GO:0071236    cellular response to antibiotic    Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of an antibiotic stimulus. An antibiotic is a chemical substance produced by a microorganism which has the capacity to inhibit the growth of or to kill other microorganisms.
    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:0030288    outer membrane-bounded periplasmic space    The region between the inner (cytoplasmic or plasma) membrane and outer membrane of organisms with two membranes such as Gram negative bacteria. These periplasmic spaces are relatively thick and contain a thin peptidoglycan layer (PGL), also referred to as a thin cell wall.
    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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  1ti1
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  DSBA_ECO57 | P0AEG5
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  DSBA_ECOLI | P0AEG4
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 Related Entries

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

UniProtKB/Swiss-Prot
        DSBA_ECO57 | P0AEG5: 1a23 1a24 1a2j 1a2l 1a2m 1ac1 1acv 1bq7 1dsb 1fvj 1fvk 1u3a 1un2
        DSBA_ECOLI | P0AEG4: 1a23 1a24 1a2j 1a2l 1a2m 1ac1 1acv 1bq7 1dsb 1fvj 1fvk 1u3a 1un2 2b3s 2b6m 2hi7 2leg 2ndo 2zup 3e9j 4tky 4zij

(-) Related Entries Specified in the PDB File

1dsb CRYSTAL STRUCTURE OF THE DSBA PROTEIN REQUIRED FOR DISULPHIDE BOND FORMATION IN VIVO.
1fvk THE 1.7 ANGSTROM STRUCTURE OF WILD TYPE DISULFIDE BOND FORMATION PROTEIN (DSBA)