SMTL ID : 6ui9.1

Structure of human ATP citrate lyase in complex with acetyl-CoA and oxaloacetate

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

4 x ACO: ACETYL COENZYME *A(Non-covalent)

ACO.1: 19 residues within 4Å: Chain A: K.964, L.969, I.970, I.973, K.1017, K.1018, L.1021 Chain C: Q.505, F.533, F.572, A.573, S.574, R.576, S.577, I.597, E.599, A.624, T.625 Ligands: OAA.8 11 PLIP interactions: 5 interactions with chain C, 6 interactions with chain A Hydrophobic interactions: C:E.599 Hydrogen bonds: C:S.574, C:S.577, C:E.599, A:I.970, A:I.970 Salt bridges: C:R.576, A:K.964, A:K.1017, A:K.1018, A:K.1018 ACO.4: 19 residues within 4Å: Chain A: Q.505, F.533, F.572, A.573, S.574, R.576, S.577, I.597, E.599, A.624, T.625 Chain C: K.964, L.969, I.970, I.973, K.1017, K.1018, L.1021 Ligands: OAA.2 12 PLIP interactions: 5 interactions with chain A, 7 interactions with chain C Hydrophobic interactions: A:E.599 Hydrogen bonds: A:S.574, A:S.577, A:E.599, C:I.970, C:I.970, C:K.1018 Salt bridges: A:R.576, C:K.964, C:K.1017, C:K.1018, C:K.1018 ACO.7: 19 residues within 4Å: Chain B: Q.505, F.533, F.572, A.573, S.574, R.576, S.577, I.597, E.599, A.624, T.625 Chain D: K.964, L.969, I.970, I.973, K.1017, K.1018, L.1021 Ligands: OAA.5 11 PLIP interactions: 5 interactions with chain B, 6 interactions with chain D Hydrophobic interactions: B:E.599 Hydrogen bonds: B:S.574, B:S.577, B:E.599, D:I.970, D:I.970 Salt bridges: B:R.576, D:K.964, D:K.1017, D:K.1018, D:K.1018 ACO.10: 19 residues within 4Å: Chain B: K.964, L.969, I.970, I.973, K.1017, K.1018, L.1021 Chain D: Q.505, F.533, F.572, A.573, S.574, R.576, S.577, I.597, E.599, A.624, T.625 Ligands: OAA.11 11 PLIP interactions: 5 interactions with chain D, 6 interactions with chain B Hydrophobic interactions: D:E.599 Hydrogen bonds: D:S.574, D:S.577, D:E.599, B:I.970, B:I.970 Salt bridges: D:R.576, B:K.964, B:K.1017, B:K.1018, B:K.1018

8 x OAA: OXALOACETATE ION(Non-covalent)

OAA.2: 5 residues within 4Å: Chain A: A.310, N.346, F.347, T.348 Ligands: ACO.4 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.346, A:N.346, A:F.347, A:T.348, A:T.348 Salt bridges: A:R.507 OAA.3: 7 residues within 4Å: Chain A: V.904, F.935, G.936, D.1026, F.1061, R.1065 Chain B: R.1085 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:F.935 Hydrogen bonds: A:G.936, A:R.1065, A:R.1065 Salt bridges: A:H.900, B:R.1085 OAA.5: 6 residues within 4Å: Chain B: G.309, A.310, N.346, F.347, T.348 Ligands: ACO.7 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:F.347, B:T.348, B:T.348 Salt bridges: B:R.507 OAA.6: 7 residues within 4Å: Chain A: R.1085 Chain B: V.904, F.935, G.936, D.1026, F.1061, R.1065 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:F.935 Hydrogen bonds: B:G.936, B:R.1065, B:R.1065 Salt bridges: B:H.900, A:R.1085 OAA.8: 5 residues within 4Å: Chain C: A.310, N.346, F.347, T.348 Ligands: ACO.1 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:N.346, C:F.347, C:T.348, C:T.348 Salt bridges: C:R.507 OAA.9: 6 residues within 4Å: Chain C: F.935, G.936, D.1026, F.1061, R.1065 Chain D: R.1085 6 PLIP interactions: 5 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:F.935 Hydrogen bonds: C:G.936, C:R.1065, C:R.1065 Salt bridges: C:H.900, D:R.1085 OAA.11: 6 residues within 4Å: Chain D: G.309, A.310, N.346, F.347, T.348 Ligands: ACO.10 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:N.346, D:F.347, D:T.348, D:T.348 Salt bridges: D:R.507 OAA.12: 7 residues within 4Å: Chain C: R.1085 Chain D: V.904, F.935, G.936, D.1026, F.1061, R.1065 6 PLIP interactions: 5 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:F.935 Hydrogen bonds: D:G.936, D:R.1065, D:R.1065 Salt bridges: D:H.900, C:R.1085

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wei, X. et al., Molecular basis for acetyl-CoA production by ATP-citrate lyase. Nat.Struct.Mol.Biol. (2020)

Release Date

2019-12-25

Peptides

ACLY: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

ACLY

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