SMTL ID : 6oze.1

Crystal structure of the catalytic domain of human Endonuclease V (C140S/C225S/C226A/C228S)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

monomer

Ligands

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 3 residues within 4Å: Chain A: R.54, M.76, L.243 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.243 Salt bridges: A:R.54 ACT.2: 2 residues within 4Å: Chain A: R.11, R.15 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:R.15 Salt bridges: A:R.11

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 5 residues within 4Å: Chain A: L.67, R.171, A.218, S.220, R.221 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.171, A:R.171, A:A.218, A:R.221, A:R.221 GOL.4: 2 residues within 4Å: Chain A: L.160, K.164 No protein-ligand interaction detected (PLIP)

2 x NA: SODIUM ION(Non-functional Binders)

NA.5: 4 residues within 4Å: Chain A: R.166, L.168, Q.169, R.190 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:L.168, A:R.190 NA.6: 4 residues within 4Å: Chain A: L.37, Q.38, F.64, P.65 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.37 Water bridges: A:L.37, A:F.64

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wu, J. et al., Evolution of Inosine-Specific Endonuclease V from Bacterial DNase to Eukaryotic RNase. Mol.Cell (2019)

Release Date

2019-09-04

Peptides

Endonuclease V: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Endonuclease V