SMTL ID : 1e3w.1

Rat brain 3-hydroxyacyl-CoA dehydrogenase binary complex with NADH and 3-keto butyrate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

hetero-1-3-mer

Ligands

4 x NAD: NICOTINAMIDE-ADENINE-DINUCLEOTIDE(Non-covalent)

NAD.1: 27 residues within 4Å: Chain A: G.17, S.20, G.21, L.22, D.41, V.42, A.63, N.64, V.65, C.91, A.92, G.93, I.94, V.120, T.153, A.154, S.155, Y.168, K.172, P.198, G.199, L.200, F.201, T.203, P.204, L.205, L.206 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:P.198 Hydrogen bonds: A:G.17, A:S.20, A:L.22, A:V.42, A:N.64, A:V.65, A:A.92, A:G.93, A:K.172, A:F.201, A:F.201 Water bridges: A:G.23, A:N.64 NAD.5: 27 residues within 4Å: Chain B: G.17, S.20, G.21, L.22, D.41, V.42, A.63, N.64, V.65, C.91, A.92, G.93, I.94, V.120, T.153, A.154, S.155, Y.168, K.172, P.198, G.199, L.200, F.201, T.203, P.204, L.205, L.206 17 PLIP interactions: 17 interactions with chain B Hydrophobic interactions: B:P.198 Hydrogen bonds: B:G.17, B:S.20, B:L.22, B:V.42, B:N.64, B:N.64, B:V.65, B:A.92, B:G.93, B:K.172, B:F.201, B:F.201, B:T.203 Water bridges: B:S.20, B:S.20, B:G.23 NAD.8: 26 residues within 4Å: Chain C: G.17, S.20, G.21, L.22, D.41, V.42, A.63, N.64, V.65, C.91, A.92, G.93, I.94, V.120, T.153, A.154, S.155, Y.168, K.172, P.198, G.199, L.200, F.201, T.203, P.204, L.205 17 PLIP interactions: 17 interactions with chain C Hydrophobic interactions: C:P.198 Hydrogen bonds: C:G.17, C:S.20, C:L.22, C:V.42, C:N.64, C:N.64, C:V.65, C:A.92, C:G.93, C:Y.168, C:K.172, C:F.201, C:F.201, C:T.203, C:L.205 Water bridges: C:G.23 NAD.11: 27 residues within 4Å: Chain D: G.17, S.20, G.21, L.22, D.41, V.42, A.63, N.64, V.65, C.91, A.92, G.93, I.94, V.120, T.153, A.154, S.155, Y.168, K.172, P.198, G.199, L.200, F.201, T.203, P.204, L.205 Ligands: AAE.12 15 PLIP interactions: 15 interactions with chain D Hydrophobic interactions: D:P.198 Hydrogen bonds: D:G.17, D:S.20, D:S.20, D:L.22, D:V.42, D:N.64, D:V.65, D:A.92, D:G.93, D:K.172, D:F.201, D:F.201, D:L.205 Water bridges: D:G.23

3 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.2: 6 residues within 4Å: Chain A: E.249, V.250 Chain C: F.159, E.249, V.250, R.252 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:E.249 Water bridges: A:E.249, A:V.250, C:R.252 TRS.6: 6 residues within 4Å: Chain B: E.249, V.250 Chain D: F.159, E.249, V.250, R.252 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain D Water bridges: B:E.249, B:V.250, D:R.252 Hydrogen bonds: D:V.250 TRS.10: 5 residues within 4Å: Chain C: E.68, K.69 Chain D: L.111, E.112 Ligands: SO4.9 5 PLIP interactions: 1 interactions with chain D, 4 interactions with chain C Water bridges: D:E.112, C:E.68, C:K.69 Hydrogen bonds: C:E.68, C:K.69

5 x SO4: SULFATE ION(Non-functional Binders)

SO4.3: 3 residues within 4Å: Chain A: S.67, E.68, K.69 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.68, A:K.69 Water bridges: A:E.68, A:E.68 Salt bridges: A:K.69 SO4.4: 4 residues within 4Å: Chain A: N.139, E.140, P.141, R.147 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.147 SO4.7: 4 residues within 4Å: Chain B: T.66, S.67, E.68, K.69 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:S.67, B:E.68, B:K.69 Water bridges: B:K.69 Salt bridges: B:K.69 SO4.9: 4 residues within 4Å: Chain C: S.67, E.68, K.69 Ligands: TRS.10 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:E.68, C:K.69 Water bridges: C:S.67 Salt bridges: C:K.69 SO4.13: 4 residues within 4Å: Chain D: T.66, S.67, E.68, K.69 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:E.68, D:K.69 Salt bridges: D:K.69

1 x AAE: ACETOACETIC ACID(Non-functional Binders)

AAE.12: 6 residues within 4Å: Chain D: S.155, Q.165, Y.168, L.205, T.208 Ligands: NAD.11 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:Y.168, D:L.205 Hydrogen bonds: D:S.155, D:Q.165, D:Y.168, D:T.208

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Powell, A.J. et al., Recognition of Structurally Diverse Substrates by Type II 3-Hydroxyacyl-Coa Dehydrogenase (Hadh II) Amyloid-Beta Binding Alcohol Dehydrogenase (Abad). J.Mol.Biol. (2000)

Release Date

2001-05-25

Peptides

SHORT CHAIN 3-HYDROXYACYL-COA DEHYDROGENASE: A
SHORT CHAIN 3-HYDROXYACYL-COA DEHYDROGENASE: BCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

SHORT CHAIN 3-HYDROXYACYL-COA DEHYDROGENASE

SHORT CHAIN 3-HYDROXYACYL-COA DEHYDROGENASE

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