SMTL ID : 7jqh.1

Structure of wild type Glyoxylate/Hydroxypyruvate reductase A from Escherichia Coli in complex with phosphate and NADP+

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.1: 8 residues within 4Å: Chain A: E.110, Q.113, S.167, T.170 Chain B: R.147, T.170, W.171, R.172 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:E.110, A:E.110, B:T.170 Water bridges: A:T.170 GOL.6: 8 residues within 4Å: Chain A: R.147, T.170, W.171, R.172 Chain B: E.110, Q.113, S.167, T.170 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:T.170, B:E.110 Water bridges: B:T.170

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

NAP.2: 39 residues within 4Å: Chain A: A.78, G.79, V.80, D.81, R.102, M.108, M.112, G.156, A.157, G.158, V.159, L.160, G.161, W.178, S.179, R.180, T.181, K.183, G.193, L.210, L.211, P.212, N.213, E.216, T.217, L.238, A.239, R.240, D.264, V.265, H.288, V.289, A.290, A.291, I.292, R.323, Y.325 Ligands: PO4.3, PO4.4 30 PLIP interactions: 30 interactions with chain A Hydrophobic interactions: A:A.78, A:L.160, A:A.291 Hydrogen bonds: A:A.157, A:A.157, A:V.159, A:L.160, A:R.180, A:T.181, A:T.181, A:T.181, A:H.288, A:A.290, A:A.291, A:A.291, A:Y.325 Water bridges: A:R.102, A:R.102, A:G.158, A:G.161, A:R.180, A:K.183, A:K.183, A:R.194, A:N.213, A:N.213, A:E.216 Salt bridges: A:R.102, A:R.102, A:K.183 NAP.7: 39 residues within 4Å: Chain B: A.78, G.79, V.80, D.81, R.102, M.108, M.112, G.156, A.157, G.158, V.159, L.160, G.161, W.178, S.179, R.180, T.181, K.183, G.193, L.210, L.211, P.212, N.213, E.216, T.217, L.238, A.239, R.240, D.264, V.265, H.288, V.289, A.290, A.291, I.292, R.323, Y.325 Ligands: PO4.8, PO4.9 31 PLIP interactions: 31 interactions with chain B Hydrophobic interactions: B:A.78, B:L.160, B:A.291 Hydrogen bonds: B:A.157, B:A.157, B:V.159, B:L.160, B:R.180, B:T.181, B:T.181, B:T.181, B:D.264, B:H.288, B:A.290, B:A.291, B:A.291, B:Y.325 Water bridges: B:R.102, B:R.102, B:G.158, B:G.161, B:R.180, B:K.183, B:K.183, B:R.194, B:N.213, B:N.213, B:E.216 Salt bridges: B:R.102, B:R.102, B:K.183

6 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 7 residues within 4Å: Chain A: W.58, G.77, A.78, G.79, R.240, H.288 Ligands: NAP.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:A.78, A:G.79 Water bridges: A:T.293 Salt bridges: A:R.240, A:H.288 PO4.4: 6 residues within 4Å: Chain A: W.178, R.180, G.193, R.194, E.216 Ligands: NAP.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.180, A:R.194 Water bridges: A:R.180, A:R.194, A:R.194 PO4.5: 5 residues within 4Å: Chain A: F.124, H.146, R.147, R.172 Chain B: R.294 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.147 Water bridges: A:R.147, A:R.172, A:R.172 Salt bridges: A:H.146, A:R.147, A:R.172, B:R.294 PO4.8: 7 residues within 4Å: Chain B: W.58, G.77, A.78, G.79, R.240, H.288 Ligands: NAP.7 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:A.78, B:G.79 Water bridges: B:T.293 Salt bridges: B:R.240, B:H.288 PO4.9: 6 residues within 4Å: Chain B: W.178, R.180, G.193, R.194, E.216 Ligands: NAP.7 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.180, B:R.194 Water bridges: B:R.180, B:R.194, B:R.194 PO4.10: 5 residues within 4Å: Chain A: R.294 Chain B: F.124, H.146, R.147, R.172 8 PLIP interactions: 7 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:R.147 Water bridges: B:R.147, B:R.172, B:R.172 Salt bridges: B:H.146, B:R.147, B:R.172, A:R.294

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vuksanovic, N. et al., Structure of wild type Glyoxylate/Hydroxypyruvate reductase A from Escherichia Coli in complex with phosphate and NADP+. To Be Published

Release Date

2021-09-08

Peptides

Glyoxylate/hydroxypyruvate reductase A: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Glyoxylate/hydroxypyruvate reductase A

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