SMTL ID : 8dgl.1

Crystal Structure of the RdfS Excisionase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

homo-tetramer

Ligands

4 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 3 residues within 4Å: Chain A: L.31, S.32, T.35 Ligand excluded by PLIP CL.3: 2 residues within 4Å: Chain B: S.32, T.35 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain C: S.32, T.35 Ligand excluded by PLIP CL.7: 2 residues within 4Å: Chain D: D.5, E.6 Ligand excluded by PLIP

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: Y.54, V.55, R.56 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:V.55, A:R.56 Water bridges: A:T.22, A:T.22, A:Q.33, A:R.56 GOL.4: 3 residues within 4Å: Chain B: N.21, Y.54, R.56 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.21, B:R.56, B:R.56 Water bridges: B:T.22, B:V.55 GOL.6: 2 residues within 4Å: Chain C: Y.54, R.56 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:N.21, C:R.56, C:R.56

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Verdonk, C.J. et al., Crystallographic and X-ray scattering study of RdfS, a recombination directionality factor from an integrative and conjugative element. Acta Crystallogr D Struct Biol (2022)

Release Date

2022-10-05

Peptides

Recombination Directionality Factor RdfS: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Recombination Directionality Factor RdfS