3KCQ | pdb_00003kcq

Crystal structure of phosphoribosylglycinamide formyltransferase from anaplasma phagocytophilum

• PDB DOI: https://doi.org/10.2210/pdb3KCQ/pdb

• Classification: TRANSFERASE
• Organism(s): Anaplasma phagocytophilum str. HZ
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-10-21 Released: 2009-12-15 
• Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 
  0.263 (Depositor), 0.264 (DCC) 
• R-Value Work: 
  0.210 (Depositor), 0.213 (DCC) 
• R-Value Observed: 
  0.212 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of phosphoribosylglycinamide formyltransferase from anaplasma phagocytophilum

Staker, B.L., Edwards, T., Dieterich, M., Seattle Structural Genomics Center for Infectious Disease (SSGCID)

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 generated by PISA (software)

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 94.44 kDa 
• Atom Count: 6,460 
• Modeled Residue Count: 824 
• Deposited Residue Count: 860 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Phosphoribosylglycinamide formyltransferase	A, B, C, D	215	Anaplasma phagocytophilum str. HZ	Mutation(s): 0  Gene Names: purN, APH_0230 EC: 2.1.2.2
UniProt
Find proteins for Q2GLA4 (Anaplasma phagocytophilum (strain HZ)) Explore Q2GLA4  Go to UniProtKB:  Q2GLA4

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	E [auth A], F [auth B], G [auth C], H [auth D]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free:  0.263 (Depositor), 0.264 (DCC) 
• R-Value Work:  0.210 (Depositor), 0.213 (DCC) 
• R-Value Observed: 0.212 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 62.45	α = 90
b = 125.247	β = 95.44
c = 138.537	γ = 90

Software Package:

Software Name	Purpose
PHASER	phasing
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-12-15 
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History  

• Version 1.0: 2009-12-15
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Refinement description, Source and taxonomy, Version format compliance
• Version 1.2: 2023-09-06
  Changes: Data collection, Database references, Derived calculations, Refinement description