1G20

MGATP-BOUND AND NUCLEOTIDE-FREE STRUCTURES OF A NITROGENASE PROTEIN COMPLEX BETWEEN LEU127DEL-FE PROTEIN AND THE MOFE PROTEIN

Structural Biology Knowledgebase: 1G20 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.255
  • R-Value Work: 0.219

Literature

Macromolecules
Sequence Display for 1G20

Classification: OXIDOREDUCTASE

Total Structure Weight: 359630.16

Macromolecule Entities
Molecule Chains Length Organism Details
NITROGENASE MOLYBDENUM-IRON PROTEIN ALPHA CHAIN A, C 492 Azotobacter vinelandii EC#: 1.18.6.1 IUBMB
Gene Name(s): nifD
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
NITROGENASE MOLYBDENUM-IRON PROTEIN BETA CHAIN B, D 523 Azotobacter vinelandii EC#: 1.18.6.1 IUBMB
Gene Name(s): nifK
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
NITROGENASE IRON PROTEIN E, F, G, H 289 Azotobacter vinelandii EC#: 1.18.6.1 IUBMB
Mutation: ΔL128
Gene Name(s): nifH1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

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

A, C FE-MO-S CLUSTER
Fe7 Mo S9
UZRXIPMKRKMLQF-VGXFRCDIAP
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CLF
Query on CLF

B, D FE(8)-S(7) CLUSTER
Fe8 S7
JKVMXLBGZBULKV-DHHOTQGYAO
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SF4
Query on SF4

E, G IRON/SULFUR CLUSTER
Fe4 S4
LJBDFODJNLIPKO-VKOJMFJBAC
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
HCA
Query on HCA

A, C 3-HYDROXY-3-CARBOXY-ADIPIC ACID
C7 H10 O7
XKJVEVRQMLKSMO-SSDOTTSWSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CA
Query on CA

B, D CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.2 Å
  • R-Value Free: 0.255
  • R-Value Work: 0.219
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 264.24 α = 90.00
b = 111.46 β = 97.40
c = 121.59 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2000-10-16
  • Released Date: 2001-01-31
  • Deposition author(s): Chiu, H.-J., Peters, J.W., Lanzilotta, W.N., Ryle, M.J., Seefeldt, L.C., Howard, J.B., Rees, D.C.

Revision History

  • 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