SMTL ID : 8qnd.1

Crystal structure of the ribonucleoside hydrolase C from Lactobacillus reuteri

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-tetramer

Ligands

6 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: D.16, D.21, T.128, D.238 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:D.16, A:D.21, A:T.128, H2O.1, H2O.4 CA.2: 6 residues within 4Å: Chain A: V.110, E.111, E.140 Chain C: V.110, E.111, E.140 5 PLIP interactions: 2 interactions with chain A, 3 interactions with chain C Metal complexes: A:E.111, A:E.140, C:E.111, C:E.140, C:E.140 CA.3: 4 residues within 4Å: Chain B: D.16, D.21, T.128, D.238 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.16, B:D.21, B:T.128, H2O.9, H2O.12 CA.4: 6 residues within 4Å: Chain B: V.110, E.111, E.140 Chain D: V.110, E.111, E.140 5 PLIP interactions: 3 interactions with chain D, 2 interactions with chain B Metal complexes: D:E.111, D:E.140, D:E.140, B:E.111, B:E.140 CA.5: 4 residues within 4Å: Chain C: D.16, D.21, T.128, D.238 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.16, C:D.21, C:T.128, H2O.18, H2O.20 CA.6: 4 residues within 4Å: Chain D: D.16, D.21, T.128, D.238 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.16, D:D.21, D:T.128, H2O.25, H2O.25

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shaposhnikov, L.A. et al., Structure-Functional Examination of Novel Ribonucleoside Hydrolase C (RihC) from Limosilactobacillus reuteri LR1. Int J Mol Sci (2023)

Release Date

2023-12-20

Peptides

Inosine-uridine nucleoside N-ribohydrolase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Inosine-uridine nucleoside N-ribohydrolase