1DP9

CRYSTAL STRUCTURE OF IMIDAZOLE-BOUND FIXL HEME DOMAIN

Structural Biology Knowledgebase: 1DP9 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.263
  • R-Value Work: 0.195

Literature

Macromolecules
Sequence Display for 1DP9

Classification: OXYGEN STORAGE / TRANSPORT

Total Structure Weight: 15605.56

Macromolecule Entities
Molecule Chains Length Organism Details
FIXL PROTEIN A 131 Bradyrhizobium japonicum EC#: 2.7.13.3 IUBMB
Fragment: HEME DOMAIN
Mutation: T140M
Gene Name(s): fixL bll2760
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A PROTOPORPHYRIN IX CONTAINING FE
HEME (Synonym)
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
IMD
Query on IMD

A IMIDAZOLE
C3 H5 N2
RAXXELZNTBOGNW-UHFFFAOYSA-O
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.263
  • R-Value Work: 0.195
  • Space Group: H 3 2

Unit Cell:

Length (Å) Angle (°)
a = 125.97 α = 90.00
b = 125.97 β = 90.00
c = 58.73 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 1999-12-24
  • Released Date: 2000-12-24
  • Deposition author(s): Gong, W., Hao, B., Chan, M.K.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4