SMTL ID : 8q3h.1 (1 other biounit)

Capra hircus reactive intermediate deaminase A mutant - A108D

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.57 Å

Oligo State

homo-trimer

Ligands

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

EDO.1: 3 residues within 4Å: Chain A: Q.101, Y.102, Q.104 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.104 EDO.3: 3 residues within 4Å: Chain B: Q.101, Y.102, Q.104 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.104 EDO.5: 3 residues within 4Å: Chain C: Q.101, Y.102, Q.104 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:Q.104

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 8 residues within 4Å: Chain A: F.92, R.110, D.111, A.112 Chain C: Y.24, S.37, G.38, P.119 8 PLIP interactions: 4 interactions with chain A, 4 interactions with chain C Hydrogen bonds: A:R.110, A:R.110, A:R.110, C:G.38 Water bridges: A:A.112, C:Y.24, C:Y.24, C:Y.24 GOL.4: 8 residues within 4Å: Chain A: Y.24, S.37, G.38, P.119 Chain B: F.92, R.110, D.111, A.112 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:R.110, B:R.110, B:R.110, A:G.38 Water bridges: B:A.112, A:Y.24, A:Y.24, A:Y.24 GOL.6: 8 residues within 4Å: Chain B: Y.24, S.37, G.38, P.119 Chain C: F.92, R.110, D.111, A.112 8 PLIP interactions: 4 interactions with chain B, 4 interactions with chain C Hydrogen bonds: B:G.38, C:R.110, C:R.110, C:R.110 Water bridges: B:Y.24, B:Y.24, B:Y.24, C:A.112

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rizzi, G. et al., Site-directed mutagenesis reveals the interplay between stability, structure, and enzymatic activity in RidA from Capra hircus. Protein Sci. (2024)

Release Date

2024-06-26

Peptides

2-iminobutanoate/2-iminopropanoate deaminase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

2-iminobutanoate/2-iminopropanoate deaminase

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