SMTL ID : 7aaw.1

Thioredoxin Reductase from Bacillus cereus

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

homo-dimer

Ligands

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

FAD.1: 31 residues within 4Å: Chain A: G.16, A.17, G.18, P.19, A.20, L.38, E.39, R.40, I.42, G.44, G.45, Q.46, M.47, T.50, V.53, N.55, G.85, D.86, V.87, A.114, S.115, G.116, A.117, C.141, G.280, D.281, R.288, Q.289, I.290, A.293 Chain B: Y.27 28 PLIP interactions: 27 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:Q.46, A:T.50 Hydrogen bonds: A:A.17, A:G.18, A:A.20, A:R.40, A:R.40, A:G.44, A:G.45, A:Q.46, A:Q.46, A:N.55, A:N.55, A:V.87, A:V.87, A:A.117, A:D.281, A:R.288, A:I.290 Water bridges: A:G.21, A:E.39, A:Q.46, A:T.50, A:E.54, A:E.54, A:V.282, A:V.282, B:Y.27 FAD.6: 34 residues within 4Å: Chain A: Y.27 Chain B: I.15, G.16, A.17, G.18, P.19, A.20, L.38, E.39, R.40, I.42, G.44, G.45, Q.46, M.47, T.50, V.53, N.55, G.85, D.86, V.87, A.114, S.115, G.116, A.117, Y.119, C.141, L.247, G.280, D.281, R.288, Q.289, I.290, A.293 30 PLIP interactions: 29 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:Q.46, B:T.50, B:Y.119 Hydrogen bonds: B:G.18, B:A.20, B:G.21, B:R.40, B:G.45, B:Q.46, B:Q.46, B:N.55, B:N.55, B:D.86, B:V.87, B:V.87, B:A.117, B:D.281, B:R.288, B:I.290, A:Y.27 Water bridges: B:E.39, B:R.40, B:Q.46, B:E.54, B:N.55, B:A.117, B:V.282, B:V.282, B:V.291 pi-Cation interactions: B:R.40

4 x GLC: alpha-D-glucopyranose(Non-covalent)

GLC.2: 6 residues within 4Å: Chain A: R.30, K.77, F.78 Chain B: E.54, A.144, F.145 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:R.30, A:R.30, B:E.54 Water bridges: A:K.77, B:A.144 Salt bridges: A:K.77 GLC.3: 9 residues within 4Å: Chain A: E.51, D.52, G.132, R.133, G.134, V.135, D.142, F.145, F.146 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.52, A:D.52, A:G.132, A:G.134, A:V.135 GLC.4: 7 residues within 4Å: Chain A: P.125, G.126, E.129, E.209, I.210, N.211, E.212 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.209, A:N.211, A:E.212 Water bridges: A:G.126, A:E.129, A:E.129 GLC.8: 8 residues within 4Å: Chain B: E.51, D.52, G.132, R.133, G.134, D.142, F.145, F.146 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:D.52, B:D.52, B:G.132, B:G.134 Water bridges: B:R.133

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

ACT.5: 4 residues within 4Å: Chain A: Q.302 Chain B: V.140, E.163, M.286 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:V.140 Hydrogen bonds: A:Q.302

1 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.7: 15 residues within 4Å: Chain B: G.155, G.156, G.157, D.158, S.159, E.162, H.178, R.179, R.180, R.184, Q.186, L.189, Y.241, I.242, G.243 23 PLIP interactions: 23 interactions with chain B Hydrophobic interactions: B:D.158 Hydrogen bonds: B:G.156, B:G.156, B:D.158, B:S.159, B:S.159, B:E.162, B:Q.186 Water bridges: B:G.155, B:G.157, B:D.158, B:D.158, B:D.158, B:D.158, B:S.159, B:A.160, B:G.243 Salt bridges: B:H.178, B:R.179, B:R.180, B:R.184 pi-Cation interactions: B:R.179, B:R.179

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

NA.9: 4 residues within 4Å: Chain B: A.193, F.194, N.196, V.199 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:V.199

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shoor, M. et al., Thioredoxin reductase from Bacillus cereus exhibits distinct reduction and NADPH-binding properties. Febs Open Bio (2021)

Release Date

2021-09-15

Peptides

Thioredoxin reductase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Thioredoxin reductase