6GMM | pdb_00006gmm

Crystal structure of Helicobacter pylori adhesin LabA

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.06 Å
  • R-Value Free: 
    0.252 (Depositor), 0.300 (DCC) 
  • R-Value Work: 
    0.205 (Depositor), 0.230 (DCC) 
  • R-Value Observed: 
    0.206 (Depositor) 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history. 


Literature

Structural and binding characterization of the LacdiNAc-specific adhesin (LabA; HopD) exodomain from Helicobacter pylori

Paraskevopoulou, V., Schimpl, M., Overman, R.C., Stolnik, S., Chen, Y., Nguyen, L., Winkler, G.S., Gellert, P., Klassen, J.S., Falcone, F.H.

(2021) Current Research In Structural Biology 


Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
adhesin LabA455Helicobacter pyloriMutation(s): 0 
Gene Names: BW246_00440, BZL55_00170
UniProt
Find proteins for A0A1W0VQ30 (Helicobacter pylori)
Explore A0A1W0VQ30 
Go to UniProtKB:  A0A1W0VQ30
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A1W0VQ30
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.06 Å
  • R-Value Free:  0.252 (Depositor), 0.300 (DCC) 
  • R-Value Work:  0.205 (Depositor), 0.230 (DCC) 
  • R-Value Observed: 0.206 (Depositor) 
Space Group: P 41 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 59.86α = 90
b = 59.86β = 90
c = 264.74γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
XDSdata reduction
STARANISOdata scaling
Aimlessdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Engineering and Physical Sciences Research CouncilUnited KingdomEP/L01646X

Revision History  (Full details and data files)

  • Version 1.0: 2019-12-18
    Type: Initial release
  • Version 1.1: 2020-12-30
    Changes: Database references
  • Version 1.2: 2024-01-17
    Changes: Data collection, Database references, Refinement description
  • Version 1.3: 2024-11-20
    Changes: Structure summary