4U12

Crystal structure of protein HP0242 from Helicobacter pylori at 1.94 A resolution: a knotted homodimer

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.94 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.222 

wwPDB Validation   3D Report Full Report


This is version 1.5 of the entry. See complete history. 


Literature

Crystal structure of protein HP0242 from Helicobacter pylori at 1.94 A resolution: a knotted homodimer

Grabowski, M., Shabalin, I.G., Chruszcz, M., Skarina, T., Onopriyenko, O., Guthrie, J., Savchenko, A., Edwards, A., Joachimiak, A., Minor, W.

To be published.

Macromolecules
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(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Uncharacterized protein HP024294Helicobacter pylori 26695Mutation(s): 0 
Gene Names: C694_01225, HP_0242
UniProt
Find proteins for O25025 (Helicobacter pylori (strain ATCC 700392 / 26695))
Explore O25025 
Go to UniProtKB:  O25025
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO25025
Sequence Annotations
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  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
MSE
Query on MSE
A
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.94 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.221 
  • R-Value Observed: 0.222 
  • Space Group: P 43 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 44.944α = 90
b = 44.944β = 90
c = 117.883γ = 90
Software Package:
Software NamePurpose
HKL-3000data collection
HKL-3000data reduction
HKL-3000data scaling
SCALEPACKdata scaling
HKL-3000phasing
SHELXDEphasing
DMphasing
RESOLVEphasing
ARPmodel building
Cootmodel building
PDB_EXTRACTdata extraction
REFMACrefinement

Structure Validation

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View more in-depth experimental data
Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR01-GM053163
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesU54-GM094585-04

Revision History  (Full details and data files)

  • Version 1.0: 2014-07-23
    Type: Initial release
  • Version 1.1: 2014-08-06
    Changes: Structure summary
  • Version 1.2: 2017-09-20
    Changes: Author supporting evidence, Database references, Derived calculations, Other, Source and taxonomy
  • Version 1.3: 2019-12-25
    Changes: Author supporting evidence
  • Version 1.4: 2022-04-13
    Changes: Database references, Refinement description, Structure summary
  • Version 1.5: 2023-12-27
    Changes: Data collection