3IR7

Crystal structure of NarGHI mutant NarG-R94S

Structural Biology Knowledgebase: 3IR7 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.202

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3IR7

Classification: OXIDOREDUCTASE

Total Structure Weight: 229250.19

Macromolecule Entities
Molecule Chains Length Organism Details
Respiratory nitrate reductase 1 alpha chain A 1247 Escherichia coli EC#: 1.7.99.4 IUBMB
Fragment: NarG
Mutation: R94S
Gene Name(s): narG bisD narC b1224 JW1215
Respiratory nitrate reductase 1 beta chain B 512 Escherichia coli EC#: 1.7.99.4 IUBMB
Fragment: NarH
Gene Name(s): narH b1225 JW1216
Respiratory nitrate reductase 1 gamma chain C 225 Escherichia coli EC#: 1.7.99.4 IUBMB
Fragment: NarI
Gene Name(s): narI chlI b1227 JW1218

Membrane Protein

Source: inferred by homology | Group: ALPHA-HELICAL

Subgroup Name: Oxidoreductases

Protein Name: NarGHI Nitrate Reductase A


Small Molecules
Ligands 6 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
6MO
Query on 6MO

A MOLYBDENUM(VI) ION
Mo
HCNGUXXTNNIKCQ-UHFFFAOYSA-N
Ligand Explorer
 
JSmol
AGA
Query on AGA

A (1S)-2-{[{[(2S)-2,3-DIHYDROXYPROPYL]OXY}(HYDROXY)PHOSPHORYL]OXY}- 1-[(PENTANOYLOXY)METHYL]ETHYL OCTANOATE
PHOSPHATIDYL GLYCEROL (Synonym)
C19 H36 O10 P
UQSXQYRZHMGKIE-DLBZAZTESA-M
Ligand Explorer
 
JSmol
F3S
Query on F3S

B FE3-S4 CLUSTER
Fe3 S4
FCXHZBQOKRZXKS-MZMDZPPWAW
Ligand Explorer
 
JSmol
HEM
Query on HEM

C PROTOPORPHYRIN IX CONTAINING FE
HEME (Synonym)
C34 H32 Fe N4 O4
KABFMIBPWCXCRK-RGGAHWMASA-L
Ligand Explorer
 
JSmol
MD1
Query on MD1

A PHOSPHORIC ACID 4-(2-AMINO-4-OXO-3,4,5,6,- TETRAHYDRO-PTERIDIN-6-YL)-2-HYDROXY-3,4-DIMERCAPTO- BUT-3-EN-YL ESTER GUANYLATE ESTER
C20 H26 N10 O13 P2 S2
IRGDLSAXQOKWLX-XHEYTWMPSA-N
Ligand Explorer
 
JSmol
SF4
Query on SF4

A, B IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-VKOJMFJBAC
Ligand Explorer
 
JSmol
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
FME
Query on FME
C L-PEPTIDE LINKING C6 H11 N O3 S MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.5 Å
  • R-Value Free: 0.243
  • R-Value Work: 0.202
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 153.85 α = 90.00
b = 241.15 β = 90.00
c = 139.97 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-08-21
  • Released Date: 2010-01-05
  • Deposition author(s): Bertero, M.G., Rothery, R.A., Weiner, J.H., Strynadka, N.C.J.

Revision History

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