1BFD

BENZOYLFORMATE DECARBOXYLASE FROM PSEUDOMONAS PUTIDA

Structural Biology Knowledgebase: 1BFD SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.186
  • R-Value Work: 0.152

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1BFD

Classification: LYASE

Total Structure Weight: 56933.13

Macromolecule Entities
Molecule Chains Length Organism Details
BENZOYLFORMATE DECARBOXYLASE A 528 Pseudomonas putida EC#: 4.1.1.7 IUBMB
Gene Name(s): mdlC

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

A THIAMINE DIPHOSPHATE
C12 H19 N4 O7 P2 S
AYEKOFBPNLCAJY-UHFFFAOYSA-O
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)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.186
  • R-Value Work: 0.152
  • Space Group: I 2 2 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 82.30 α = 90.00
b = 96.60 β = 90.00
c = 138.30 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1998-04-30
  • Released Date: 1998-06-24
  • Deposition author(s): Hasson, M.S., Muscate, A., Mcleish, M.J., Polovnikova, L.S., Gerlt, J.A., Kenyon, G.L., Petsko, G.A., Ringe, D.

Revision History

  • 2011-11-16
    Type: Atom occupancy | Details: Atom occupancy
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Biological assembly | Details: Added software calculated values