3ZBM

Structure of M92A variant of three-domain heme-Cu nitrite reductase from Ralstonia pickettii

Structural Biology Knowledgebase: 3ZBM SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.87 Å
  • R-Value Free: 0.168
  • R-Value Work: 0.139

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3ZBM

Classification: OXIDOREDUCTASE

Total Structure Weight: 50632.59

Macromolecule Entities
Molecule Chains Length Organism Details
COPPER-CONTAINING NITRITE REDUCTASE A 468 Ralstonia pickettii EC#: 1.7.2.1 IUBMB
Mutation: M92A
Gene Name(s): Rpic_4015

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
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CU
Query on CU

A COPPER (II) ION
Cu
JPVYNHNXODAKFH-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.87 Å
  • R-Value Free: 0.168
  • R-Value Work: 0.139
  • Space Group: H 3
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 128.41 α = 90.00
b = 128.41 β = 90.00
c = 86.09 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-11-10
  • Released Date: 2013-04-03
  • Deposition author(s): Antonyuk, S.V., Han, C., Eady, R.R., Hasnain, S.S.

Revision History

  • 2013-04-17
    Type: Citation | Details: JRNL