SMTL ID : 6pxs.1

Crystal structure of iminodiacetate oxidase (IdaA) from Chelativorans sp. BNC1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.84 Å

Oligo State

homo-tetramer

Ligands

4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 43 residues within 4Å: Chain A: I.6, G.7, A.8, G.9, I.10, L.11, G.12, I.29, D.30, Q.31, N.32, H.33, K.36, A.37, T.38, A.40, G.41, A.42, G.43, V.44, D.173, Y.174, V.175, T.202, A.203, G.204, W.206, I.210, G.225, I.227, Y.250, A.263, G.305, F.306, R.307, P.308, L.332, G.333, A.334, S.335, G.336, L.337, T.338 29 PLIP interactions: 29 interactions with chain A Hydrophobic interactions: A:A.263, A:R.307 Hydrogen bonds: A:A.8, A:G.9, A:I.10, A:L.11, A:D.30, A:Q.31, A:N.32, A:H.33, A:K.36, A:A.37, A:A.37, A:A.37, A:T.38, A:T.38, A:A.42, A:G.43, A:V.44, A:V.44, A:V.175, A:V.175, A:G.336, A:L.337, A:T.338, A:T.338 Water bridges: A:Y.250 pi-Stacking: A:H.33 pi-Cation interactions: A:R.307 FAD.2: 45 residues within 4Å: Chain B: I.6, G.7, A.8, G.9, I.10, L.11, G.12, I.29, D.30, Q.31, N.32, H.33, K.36, A.37, T.38, A.40, G.41, A.42, G.43, V.44, D.173, Y.174, V.175, S.176, T.202, A.203, G.204, A.205, W.206, I.210, G.225, I.227, Y.250, A.263, G.305, F.306, R.307, P.308, L.332, G.333, A.334, S.335, G.336, L.337, T.338 31 PLIP interactions: 31 interactions with chain B Hydrophobic interactions: B:I.227, B:A.263, B:R.307 Hydrogen bonds: B:G.7, B:A.8, B:G.9, B:I.10, B:L.11, B:Q.31, B:N.32, B:H.33, B:H.33, B:K.36, B:A.37, B:A.37, B:T.38, B:T.38, B:T.38, B:A.42, B:G.43, B:V.44, B:V.44, B:V.175, B:V.175, B:L.332, B:G.336, B:L.337, B:T.338, B:T.338 pi-Stacking: B:H.33 pi-Cation interactions: B:R.307 FAD.3: 43 residues within 4Å: Chain C: I.6, G.7, A.8, G.9, I.10, L.11, G.12, I.29, D.30, Q.31, N.32, H.33, K.36, A.37, T.38, A.40, G.41, A.42, G.43, V.44, D.173, Y.174, V.175, T.202, A.203, G.204, W.206, I.210, G.225, I.227, Y.250, A.263, G.305, F.306, R.307, P.308, L.332, G.333, A.334, S.335, G.336, L.337, T.338 28 PLIP interactions: 28 interactions with chain C Hydrophobic interactions: C:A.263, C:R.307 Hydrogen bonds: C:A.8, C:G.9, C:I.10, C:L.11, C:D.30, C:D.30, C:Q.31, C:N.32, C:H.33, C:K.36, C:A.37, C:T.38, C:T.38, C:T.38, C:A.42, C:G.43, C:V.44, C:V.44, C:V.175, C:V.175, C:G.336, C:L.337, C:T.338, C:T.338 pi-Stacking: C:H.33 pi-Cation interactions: C:R.307 FAD.4: 44 residues within 4Å: Chain D: I.6, G.7, A.8, G.9, I.10, L.11, G.12, I.29, D.30, Q.31, N.32, H.33, K.36, A.37, T.38, A.40, G.41, A.42, G.43, V.44, D.173, Y.174, V.175, T.202, A.203, G.204, W.206, I.210, G.225, Q.226, I.227, Y.250, A.263, G.305, F.306, R.307, P.308, L.332, G.333, A.334, S.335, G.336, L.337, T.338 29 PLIP interactions: 29 interactions with chain D Hydrophobic interactions: D:A.263, D:R.307 Hydrogen bonds: D:A.8, D:G.9, D:L.11, D:D.30, D:D.30, D:D.30, D:Q.31, D:N.32, D:H.33, D:K.36, D:A.37, D:A.37, D:T.38, D:T.38, D:T.38, D:A.42, D:G.43, D:V.44, D:V.44, D:V.175, D:V.175, D:G.333, D:G.336, D:L.337, D:T.338 pi-Stacking: D:H.33 pi-Cation interactions: D:R.307

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kang, C. et al., Structural and biochemical characterization of iminodiacetate oxidase from Chelativorans sp. BNC1. Mol.Microbiol. (2019)

Release Date

2019-10-16

Peptides

FAD dependent oxidoreductase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

FAD dependent oxidoreductase