› 5xt6

X-ray diffraction
3.5Å resolution

A sulfur-transferring catalytic intermediate of SufS-SufU complex from Bacillus subtilis

Released:
DOI: 10.2210/pdb5xt6/pdb
PDB entry 5xt6 coloured by chain, front view.
PDB entry 5xt6 coloured by chain, side view.
PDB entry 5xt6 coloured by chain, top view.
Source organism: Bacillus subtilis subsp. subtilis str. 168
Primary publication:
Zinc-Ligand Swapping Mediated Complex Formation and Sulfur Transfer between SufS and SufU for Iron-Sulfur Cluster Biogenesis in Bacillus subtilis.
Fujishiro T, Terahata T, Kunichika K, Yokoyama N, Maruyama C, Asai K, Takahashi Y
J Am Chem Soc 139 18464-18467 (2017)
PMID: 29235855

Function and Biology Details

Reaction catalysed: 
(1a) L-cysteine + [enzyme]-cysteine = L-alanine + [enzyme]-S-sulfanylcysteine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-128424 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Zinc-dependent sulfurtransferase SufU Chain: D
Molecule details ›
Chain: D
Length: 155 amino acids
Theoretical weight: 17.26 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
Expression system: Escherichia coli
UniProt:
  • Canonical: O32163 (Residues: 1-147; Coverage: 100%)
Gene names: BSU32680, iscU, nifU, sufU, yurV
Sequence domains: NifU-like N terminal domain
Structure domains: Sufe protein. Chain: A
Cysteine desulfurase SufS Chains: A, B
Molecule details ›
Chains: A, B
Length: 419 amino acids
Theoretical weight: 46.62 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
Expression system: Escherichia coli
UniProt:
  • Canonical: O32164 (Residues: 1-406; Coverage: 100%)
Gene names: BSU32690, csd, sufS, yurW
Sequence domains: Aminotransferase class-V
Zinc-dependent sulfurtransferase SufU Chain: C
Molecule details ›
Chain: C
Length: 155 amino acids
Theoretical weight: 17.29 KDa
Source organism: Bacillus subtilis subsp. subtilis str. 168
Expression system: Escherichia coli
UniProt:
  • Canonical: O32163 (Residues: 1-147; Coverage: 100%)
Gene names: BSU32680, iscU, nifU, sufU, yurV
Sequence domains: NifU-like N terminal domain
Structure domains: Sufe protein. Chain: A

Ligands and Environments

2 bound ligands:
Ligand ZN 2 x ZN
Ligand PDA 2 x PDA
1 modified residue:
Ligand CSS 3 x CSS

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL26B1
Spacegroup: P65
Unit cell:
a: 73.93Å b: 73.93Å c: 367.74Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.225 0.223 0.262
Expression system: Escherichia coli

Quick links

Citations

1 review citation

Fe-S cluster biogenesis by the bacterial Suf pathway.
Blahut et al. (2020)
7 other articles

2 mentions without citation

Structural diversity of cysteine desulfurases involved in iron-sulfur cluster biosynthesis.
Fujishiro et al. (2022)
1 more