3O0R

Crystal structure of nitric oxide reductase from Pseudomonas aeruginosa in complex with antibody fragment

Structural Biology Knowledgebase: 3O0R SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.247
  • R-Value Work: 0.185

Literature

Macromolecules
Sequence Display for 3O0R

Classification: IMMUNE SYSTEM / OXIDOREDUCTASE

Total Structure Weight: 118380.20

Macromolecule Entities
Molecule Chains Length Organism Details
antibody fab fragment light chain L 213 Mus musculus
antibody fab fragment heavy chain H 225 Mus musculus
Nitric oxide reductase subunit B B 465 Pseudomonas aeruginosa EC#: 1.7.2.5 IUBMB
Mutation: ΔR301
Gene Name(s): norB PA0524
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Nitric oxide reductase subunit C C 146 Pseudomonas aeruginosa EC#: 1.7.2.5 IUBMB
Mutation: N100K
Gene Name(s): norC PA0523
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: mpstruc | Group: ALPHA-HELICAL

Subgroup Name: Nitric Oxide Reductases

Protein Name: Nitric Oxide Reductase


Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
HEC
Query on HEC

C HEME C
C34 H34 Fe N4 O4
HXQIYSLZKNYNMH-LJNAALQVSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
HEM
Query on HEM

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

B FE (III) ION
Fe
VTLYFUHAOXGGBS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

C CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
O
Query on O

B OXYGEN ATOM
O
XLYOFNOQVPJJNP-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.247
  • R-Value Work: 0.185
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 90.47 α = 90.00
b = 104.52 β = 90.00
c = 195.36 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-07-20
  • Released Date: 2010-12-29
  • Deposition author(s): Hino, T., Matsumoto, Y., Nagano, S., Sugimoto, H., Fukumori, Y., Murata, T., Iwata, S., Shiro, Y.

Revision History

  • 2013-10-16
    Type: Biological assembly | Details: --
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4