SMTL ID : 5az1.1

Crystal structure of aldo-keto reductase (AKR2E5) complexed with NADPH

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x CA: CALCIUM ION(Non-covalent)

CA.1: 4 residues within 4Å: Chain A: R.96, L.128, D.129, H.130 No protein-ligand interaction detected (PLIP)

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

EDO.2: 2 residues within 4Å: Chain A: S.205, A.207 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.205 Water bridges: A:R.270

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

ACT.3: 8 residues within 4Å: Chain A: N.176, F.177, N.178, I.198, Q.206, L.209, R.311, F.326 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:N.178, A:L.209 Hydrogen bonds: A:F.177, A:Q.206 Water bridges: A:E.199 Salt bridges: A:R.311 ACT.4: 4 residues within 4Å: Chain A: F.9, Q.214, V.219, G.271 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.9 Hydrogen bonds: A:K.10, A:Q.214 ACT.5: 4 residues within 4Å: Chain A: G.309, F.310, R.311, R.314 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.310 Hydrogen bonds: A:R.311 Water bridges: A:R.311 Salt bridges: A:R.314 ACT.6: 2 residues within 4Å: Chain A: R.67, D.98 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.67 ACT.7: 5 residues within 4Å: Chain A: Y.153, E.180, Q.181, R.184, N.323 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.153, A:Y.153, A:N.323 ACT.8: 5 residues within 4Å: Chain A: S.205, Q.206, A.207, D.208, D.307 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:A.207 Hydrogen bonds: A:A.207, A:D.208 Water bridges: A:Q.206, A:L.209

1 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.9: 28 residues within 4Å: Chain A: G.23, T.24, W.25, D.70, Y.75, K.104, H.137, W.138, S.175, N.176, Q.197, Y.223, S.224, P.225, F.226, V.230, S.232, R.233, T.260, I.275, P.276, K.277, T.278, V.279, T.280, R.283, E.286, N.287 25 PLIP interactions: 25 interactions with chain A Hydrogen bonds: A:T.24, A:W.25, A:W.25, A:D.70, A:Y.75, A:S.175, A:N.176, A:Q.197, A:S.224, A:F.226, A:S.232, A:R.233, A:K.277, A:T.278, A:V.279, A:T.280, A:E.286, A:N.287 Water bridges: A:T.260 Salt bridges: A:R.233, A:R.233, A:K.277, A:R.283 pi-Stacking: A:Y.223 pi-Cation interactions: A:R.283

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yamamoto, K. et al., Structural characterization of an aldo-keto reductase (AKR2E5) from the silkworm Bombyx mori. Biochem.Biophys.Res.Commun. (2016)

Release Date

2016-02-10

Peptides

Uncharacterized protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Uncharacterized protein

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