4JDU

The crystal structure of an aerotolerance-related membrane protein from Bacteroides fragilis NCTC 9343 with multiple mutations to serines.

Structural Biology Knowledgebase: 4JDU SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.47 Å
  • R-Value Free: 0.198
  • R-Value Work: 0.182

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4JDU

Classification: MEMBRANE PROTEIN

Total Structure Weight: 23224.44

Macromolecule Entities
Molecule Chains Length Organism Details
Aerotolerance-related membrane protein A 215 Bacteroides fragilis Fragment: UNP residues 85-296
Mutation: E208A, E212S, A213S, A214S, K215S, K216S
Gene Name(s): batB BF9343_2419

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

A FORMIC ACID
C H2 O2
BDAGIHXWWSANSR-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

A CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A L-PEPTIDE LINKING C5 H11 N O2 Se MET
MLY
Query on MLY
A L-PEPTIDE LINKING C8 H18 N2 O2 LYS

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.47 Å
  • R-Value Free: 0.198
  • R-Value Work: 0.182
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 39.28 α = 90.00
b = 49.87 β = 90.00
c = 85.45 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-02-25
  • Released Date: 2013-03-27
  • Deposition author(s): Fan, Y., Tan, K., Bigelow, L., Bearden, J., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History

No revisions since initial release