SMTL ID : 6oxn.1

2.6 Angstrom structure of W45F/H46S Glyoxylate/Hydroxypyruvate reductase A from Escherichia Coli in complex with glyoxylate and NADP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.61 Å

Oligo State

homo-dimer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 5 residues within 4Å: Chain A: E.103, Q.106, S.160 Chain B: T.163, W.164 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:E.103 Water bridges: A:S.160, B:W.164 GOL.7: 5 residues within 4Å: Chain A: T.163, W.164 Chain B: E.103, Q.106, S.160 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Water bridges: B:S.160, A:W.164

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

NAP.2: 32 residues within 4Å: Chain A: A.71, G.72, R.95, M.101, M.105, G.149, A.150, G.151, V.152, L.153, G.154, W.171, S.172, R.173, T.174, K.176, L.203, L.204, P.205, E.209, T.210, L.231, A.232, R.233, D.257, V.258, H.281, V.282, A.283, A.284, Y.318 Ligands: GLV.3 30 PLIP interactions: 30 interactions with chain A Hydrophobic interactions: A:A.71, A:L.153, A:A.284 Hydrogen bonds: A:A.150, A:A.150, A:V.152, A:L.153, A:G.154, A:R.173, A:T.174, A:A.283, A:A.284, A:A.284, A:Y.318 Water bridges: A:A.71, A:V.73, A:D.74, A:R.95, A:R.95, A:R.95, A:G.151, A:R.173, A:R.173, A:N.206, A:N.206, A:E.209, A:E.209 Salt bridges: A:R.95, A:R.95, A:K.176 NAP.8: 32 residues within 4Å: Chain B: A.71, G.72, R.95, M.101, M.105, G.149, A.150, G.151, V.152, L.153, G.154, W.171, S.172, R.173, T.174, K.176, L.203, L.204, P.205, E.209, T.210, L.231, A.232, R.233, D.257, V.258, H.281, V.282, A.283, A.284, Y.318 Ligands: GLV.9 32 PLIP interactions: 32 interactions with chain B Hydrophobic interactions: B:A.71, B:L.153, B:A.284 Hydrogen bonds: B:A.150, B:A.150, B:V.152, B:L.153, B:G.154, B:R.173, B:T.174, B:D.257, B:A.283, B:A.284, B:A.284 Water bridges: B:A.71, B:V.73, B:D.74, B:D.74, B:R.95, B:R.95, B:R.95, B:G.151, B:R.173, B:R.173, B:N.206, B:N.206, B:E.209, B:E.209, B:E.209 Salt bridges: B:R.95, B:R.95, B:K.176

2 x GLV: GLYOXYLIC ACID(Non-covalent)

GLV.3: 6 residues within 4Å: Chain A: G.70, A.71, G.72, R.233, H.281 Ligands: NAP.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.71, A:G.72, A:R.233, A:R.233 Salt bridges: A:R.233 GLV.9: 6 residues within 4Å: Chain B: G.70, A.71, G.72, R.233, H.281 Ligands: NAP.8 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:A.71, B:G.72, B:R.233, B:R.233 Salt bridges: B:R.233

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

NA.4: 1 residues within 4Å: Chain A: R.140 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.140, A:R.140 NA.5: 2 residues within 4Å: Chain A: H.13, T.18 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.13, A:H.13, A:T.18 NA.6: 4 residues within 4Å: Chain A: G.72, V.73, S.75, I.76 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.75, A:S.75, A:I.76 Water bridges: A:D.74 NA.10: 1 residues within 4Å: Chain B: R.140 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.140, B:R.140 NA.11: 2 residues within 4Å: Chain B: H.13, T.18 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:H.13, B:H.13 NA.12: 4 residues within 4Å: Chain B: G.72, V.73, S.75, I.76 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.72, B:S.75, B:I.76 Water bridges: B:D.74

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vuksanovic, N., 2.1 Angstrom structure of wild type Glyoxylate/Hydroxypyruvate reductase A from Escherichia Coli in complex with glyoxylate and NADP. To Be Published

Release Date

2020-05-20

Peptides

Glyoxylate/hydroxypyruvate reductase A: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Glyoxylate/hydroxypyruvate reductase A