2IP4

Crystal Structure of Glycinamide Ribonucleotide Synthetase from Thermus thermophilus HB8

Structural Biology Knowledgebase: 2IP4 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.219

Literature

Macromolecules
Sequence Display for 2IP4

Classification: LIGASE

Total Structure Weight: 90161.81

Macromolecule Entities
Molecule Chains Length Organism Details
Phosphoribosylamine--glycine ligase A, B 417 Thermus thermophilus EC#: 6.3.4.13 IUBMB
Gene Name(s): purD TTHA0812
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
MSE
Query on MSE
A, B L-PEPTIDE LINKING C5 H11 N O2 Se MET

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.238
  • R-Value Work: 0.219
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 72.31 α = 90.00
b = 98.07 β = 90.00
c = 121.14 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-10-11
  • Released Date: 2007-10-30
  • Deposition author(s): Sampei, G., Baba, S., Kanagawa, M., Yanai, H., Ishii, T., Kawai, H., Fukai, Y., Ebihara, A., Nakagawa, N., Kawai, G., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4
  • 2011-07-13
    Type: Source and taxonomy | Details: Removed strain from scientific name