Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

 3D View: Structure | Electron Density | Ligand Interaction

Standalone Viewers  
Protein Workshop | Ligand Explorer

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A 

Biological assembly 2 assigned by authors.

Macromolecule Content

• Total Structure Weight: 98198.45 
• Atom Count: 6360 
• Residue Count: 904 
• Unique protein chains: 1

2QK4

Human glycinamide ribonucleotide synthetase

• DOI: 10.2210/pdb2QK4/pdb

• Classification: LIGASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2007-07-10 Released: 2007-07-24 
• Deposition Author(s): Lehtio, L., Welin, M., Arrowsmith, C.H., Berglund, H., Busam, R., Collins, R., Dahlgren, L.G., Herman, M.D., Edwards, A., Flodin, S., Flores, A., Graslund, S., Hammarstrom, M., Hallberg, B.M., Holmberg-Schiavone, L., Johansson, I., Kallas, A., Karlberg, T., Kotenyova, T., Moche, M., Nyman, T., Persson, C., Sagemark, J., Stenmark, P., Sundstrom, M., Thorsell, A.G., Tresaugues, L., van den Berg, S., Weigelt, J., Nordlund, P., Structural Genomics Consortium (SGC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.45 Å
• R-Value Free: 0.221 
• R-Value Work: 0.171 

Literature

Structural studies of tri-functional human GART.

Welin, M., Grossmann, J.G., Flodin, S., Nyman, T., Stenmark, P., Tresaugues, L., Kotenyova, T., Johansson, I., Nordlund, P., Lehtio, L.

(2010) Nucleic Acids Res. 38: 7308-7319

• PubMed: 20631005 
• DOI: 10.1093/nar/gkq595
• Primary Citation of Related Structures:  
  2V9Y


• PubMed Abstract: 
  

Human purine de novo synthesis pathway contains several multi-functional enzymes, one of which, tri-functional GART, contains three enzymatic activities in a single polypeptide chain. We have solved structures of two domains bearing separate catalytic functions: glycinamide ribonucleotide synthetase and aminoimidazole ribonucleotide synthetase. Structures are compared with those of homologous enzymes from prokaryotes and analyzed in terms of the catalytic mechanism. We also report small angle X-ray scattering models for the full-length protein. These models are consistent with the enzyme forming a dimer through the middle domain. The protein has an approximate seesaw geometry where terminal enzyme units display high mobility owing to flexible linker segments. This resilient seesaw shape may facilitate internal substrate/product transfer or forwarding to other enzymes in the pathway.

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Organizational Affiliation: 

Structural Genomics Consortium, Department of Medical Biochemistry and Biophysics, Karolinska Institutet, S-17177 Stockholm, Sweden.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Trifunctional purine biosynthetic protein adenosine-3	A, B	452	Homo sapiens	Mutation(s): 0  Gene Names: GART (PGFT, PRGS)
Find proteins for P22102 (Homo sapiens) Go to Gene View: GART Go to UniProtKB:  P22102

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ATP	A, B	ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N
SO4	A, B	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
CL	A, B	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
GOL	A, B	GLYCEROL GLYCERIN; PROPANE-1,2,3-TRIOL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.45 Å
• R-Value Free: 0.221 
• R-Value Work: 0.171 
• Space Group: P 1 2₁ 1

Unit Cell:

Length (Å)	Angle (°)
a = 70.280	α = 90.00
b = 79.810	β = 104.07
c = 113.870	γ = 90.00

Software Package:

Software Name	Purpose
MOLREP	phasing
XDS	data reduction
ProDC	data collection
XSCALE	data scaling
REFMAC	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2007-07-10 
• Released Date: 2007-07-24 
• Deposition Author(s): Lehtio, L., Welin, M., Arrowsmith, C.H., Berglund, H., Busam, R., Collins, R., Dahlgren, L.G., Herman, M.D., Edwards, A., Flodin, S., Flores, A., Graslund, S., Hammarstrom, M., Hallberg, B.M., Holmberg-Schiavone, L., Johansson, I., Kallas, A., Karlberg, T., Kotenyova, T., Moche, M., Nyman, T., Persson, C., Sagemark, J., Stenmark, P., Sundstrom, M., Thorsell, A.G., Tresaugues, L., van den Berg, S., Weigelt, J., Nordlund, P., Structural Genomics Consortium (SGC)

Revision History 

• Version 1.0: 2007-07-24
  Type: Initial release
• Version 1.1: 2008-05-01
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Advisory, Version format compliance