› 4ew3

X-ray diffraction
1.7Å resolution

The structure of human glycinamide ribonucleotide transformylase in complex with 10R-methylthio-DDATHF.

Released:
DOI: 10.2210/pdb4ew3/pdb
PDB entry 4ew3 coloured by chain, front view.
PDB entry 4ew3 coloured by chain, side view.
PDB entry 4ew3 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Biological and structural evaluation of 10R- and 10S-methylthio-DDACTHF reveals a new role for sulfur in inhibition of glycinamide ribonucleotide transformylase.
Connelly S, DeMartino JK, Boger DL, Wilson IA
Biochemistry 52 5133-44 (2013)
PMID: 23869564

Function and Biology Details

Reactions catalysed: 
10-formyltetrahydrofolate + N(1)-(5-phospho-D-ribosyl)glycinamide = tetrahydrofolate + N(2)-formyl-N(1)-(5-phospho-D-ribosyl)glycinamide
ATP + 2-(formamido)-N(1)-(5-phospho-D-ribosyl)acetamidine = ADP + phosphate + 5-amino-1-(5-phospho-D-ribosyl)imidazole
ATP + 5-phospho-D-ribosylamine + glycine = ADP + phosphate + N(1)-(5-phospho-D-ribosyl)glycinamide
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-149522 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Trifunctional purine biosynthetic protein adenosine-3 Chain: A
Molecule details ›
Chain: A
Length: 209 amino acids
Theoretical weight: 22.68 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P22102 (Residues: 808-1010; Coverage: 20%)
Gene names: GART, PGFT, PRGS
Sequence domains: Formyl transferase
Structure domains: Formyl transferase, N-terminal domain

Ligands and Environments

3 bound ligands:
Ligand PO4 1 x PO4
Ligand SO4 2 x SO4
Ligand DXZ 1 x DXZ
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL11-1
Spacegroup: P6522
Unit cell:
a: 78.124Å b: 78.124Å c: 230.048Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.2 0.2 0.215
Expression system: Escherichia coli BL21(DE3)

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Citations

5 citation in other articles

Pathway genes and metabolites in thiopurine therapy in Korean children with acute lymphoblastic leukaemia.
Choi et al. (2019)
4 more