› 7oxj

X-ray diffraction
1.85Å resolution

ttSlyD with M8A pseudo-wild-type S2 peptide

Released:
DOI: 10.2210/pdb7oxj/pdb
PDB entry 7oxj coloured by chain, front view.
PDB entry 7oxj coloured by chain, side view.
PDB entry 7oxj coloured by chain, top view.
Source organisms:
Primary publication:
Impact of distant peptide substrate residues on enzymatic activity of SlyD.
Pazicky S, Werle AA, Lei J, Löw C, Weininger U
OpenAccess logo Cell Mol Life Sci 79 138 (2022)
PMID: 35184231

Function and Biology Details

Reaction catalysed: 
Peptidylproline (omega=180) = peptidylproline (omega=0)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-532130 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Peptidyl-prolyl cis-trans isomerase Chain: A
Molecule details ›
Chain: A
Length: 158 amino acids
Theoretical weight: 17.4 KDa
Source organism: Thermus thermophilus HB8
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q5SLE7 (Residues: 1-149; Coverage: 100%)
Gene name: TTHA0346
Sequence domains: FKBP-type peptidyl-prolyl cis-trans isomerase
Small ribosomal subunit protein uS2 Chain: D
Molecule details ›
Chain: D
Length: 15 amino acids
Theoretical weight: 1.71 KDa
Source organism: Escherichia coli K-12
Expression system: Not provided
UniProt:
  • Canonical: P0A7V0 (Residues: 20-34; Coverage: 6%)
Gene names: JW0164, b0169, rpsB
Fragment of 30S ribosomal protein S2 peptide Chain: E
Molecule details ›
Chain: E
Length: 2 amino acids
Theoretical weight: 188 Da
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

5 bound ligands:
Ligand NI 1 x NI
Ligand PGE 2 x PGE
Ligand PG4 1 x PG4
Ligand MG 1 x MG
Ligand CL 1 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2)
Spacegroup: P3121
Unit cell:
a: 49.282Å b: 49.282Å c: 130.7Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.2 0.198 0.224
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links