2D9R

Structure of Conserved Protein of Unknown Function PG0164 from Porphyromonas gingivalis [W83]

Structural Biology Knowledgebase: 2D9R SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.01 Å
  • R-Value Free: 0.227
  • R-Value Work: 0.178

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 2D9R

Classification: STRUCTURAL GENOMICS UNKNOWN FUNCTION

Total Structure Weight: 11761.06

Macromolecule Entities
Molecule Chains Length Organism Details
conserved hypothetical protein A 104 Porphyromonas gingivalis Mutation: M1M, M34M, M72M
Gene Name(s): PG_0164
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
BME
Query on BME

A BETA-MERCAPTOETHANOL
C2 H6 O S
DGVVWUTYPXICAM-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

A CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.01 Å
  • R-Value Free: 0.227
  • R-Value Work: 0.178
  • Space Group: P 31 2 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 50.63 α = 90.00
b = 50.63 β = 90.00
c = 68.65 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2005-12-13
  • Released Date: 2006-01-24
  • Deposition author(s): Binkowski, T.A., Hatzos, C., Moy, S., Collart, F., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History

  • 2011-07-13
    Type: Source and taxonomy | Details: Removed strain from scientific name
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4