1T3B | pdb_00001t3b

X-ray Structure of DsbC from Haemophilus influenzae


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 
    0.295 (Depositor), 0.305 (DCC) 
  • R-Value Work: 
    0.246 (Depositor), 0.255 (DCC) 
  • R-Value Observed: 
    0.249 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.4 of the entry. See complete history

Literature

Structure of DsbC from Haemophilus influenzae.

Zhang, M.Monzingo, A.F.Segatori, L.Georgiou, G.Robertus, J.D.

(2004) Acta Crystallogr D Biol Crystallogr 60: 1512-1518

  • DOI: https://doi.org/10.1107/S0907444904014593
  • Primary Citation Related Structures: 
    1T3B

  • PubMed Abstract: 

    Bacterial DsbC proteins are involved in rearranging or reducing mismatched disulfide bonds folding within the periplasm. The X-ray structure of the enzyme from Haemophilus influenzae has been solved and compared with the known structure of the Escherichia coli protein. The proteins act as V-shaped dimers with a large cleft to accommodate substrate proteins. The dimers are anchored by a small N-terminal domain, but have a flexible linker region which allows the larger C-terminal domain, with its reactive sulfhydryls, to clamp down on substrates. The overall folds are very similar, but the comparison shows a wider range of hinge motions than previously thought. The crystal packing of the H. influenzae protein allows the movement of the N-terminal domain with respect to the C-terminal domain through motions in the flexible hinge, generating high thermal parameters and unusually high anisotropy in the crystallographic data.


  • Organizational Affiliation
    • Institute for Cellular and Molecular Biology, Department of Chemistry and Biochemistry, 1 University Station, University of Texas at Austin, Austin, TX 78712, USA.

Macromolecule Content 

  • Total Structure Weight: 23.53 kDa 
  • Atom Count: 1,574 
  • Modeled Residue Count: 209 
  • Deposited Residue Count: 211 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Thiol:disulfide interchange protein dsbC211Haemophilus influenzaeMutation(s): 0 
Gene Names: DSBCXPRAHI1213
EC: 5.3.4.1
UniProt
Find proteins for P45111 (Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd))
Explore P45111 
Go to UniProtKB:  P45111
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP45111
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free:  0.295 (Depositor), 0.305 (DCC) 
  • R-Value Work:  0.246 (Depositor), 0.255 (DCC) 
  • R-Value Observed: 0.249 (Depositor) 
Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 74.92α = 90
b = 74.92β = 90
c = 103.38γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
EPMRphasing
CNSrefinement

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2004-09-07
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2023-08-23
    Changes: Data collection, Database references, Refinement description
  • Version 1.4: 2024-10-30
    Changes: Structure summary