SMTL ID : 7zs6.1

Crystal structure of Apis mellifera RidA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.31 Å

Oligo State

homo-trimer

Ligands

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 3 residues within 4Å: Chain B: V.52, N.53, A.58 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.53 Water bridges: B:N.53

1 x MG: MAGNESIUM ION(Non-functional Binders)

MG.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

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

NA.3: 0 residues within 4Å: (No contacts) 4 PLIP interactions: 4 interactions with chain B Water bridges: B:A.56, B:V.57, B:D.93, B:D.96

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Visentin, C. et al., Apis mellifera RidA, a novel member of the canonical YigF/YER057c/UK114 imine deiminase superfamily of enzymes pre-empting metabolic damage. Biochem.Biophys.Res.Commun. (2022)

Release Date

2022-07-13

Peptides

Reactive intermediate deaminase A: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
AAA

B
BBB

C
CCC

Reactive intermediate deaminase A