› 1vly

X-ray diffraction
1.3Å resolution

Crystal structure of a putative aminomethyltransferase (ygfz) from escherichia coli at 1.30 A resolution

Released:
DOI: 10.2210/pdb1vly/pdb
PDB entry 1vly coloured by chain, front view.
PDB entry 1vly coloured by chain, side view.
PDB entry 1vly coloured by chain, top view.
Source organism: Escherichia coli
Entry author: Joint Center for Structural Genomics (JCSG)

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-142353 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
tRNA-modifying protein YgfZ Chain: A
Molecule details ›
Chain: A
Length: 338 amino acids
Theoretical weight: 38.11 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P0ADE8 (Residues: 2-326; Coverage: 100%)
Gene names: JW2866, b2898, ygfZ, yzzW
Sequence domains:
Structure domains:

Ligands and Environments

4 bound ligands:
Ligand ACT 1 x ACT
Ligand CA 1 x CA
Ligand CL 1 x CL
Ligand EDO 3 x EDO
1 modified residue:
Ligand MSE 11 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL11-1
Spacegroup: P1
Unit cell:
a: 44.814Å b: 50.08Å c: 52.014Å
α: 94.68° β: 115.29° γ: 116.46°
R-values:
R R work R free
0.136 0.134 0.168
Expression system: Escherichia coli

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