SMTL ID : 6uv5.1

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

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-tetramer

Ligands

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

ACO.1: 18 residues within 4Å: Chain A: F.533, F.572, A.573, S.574, R.576, S.577, I.597, E.599, T.625, V.626 Chain C: K.964, L.969, I.970, I.973, K.1017, K.1018, L.1021 Ligands: OAA.3 9 PLIP interactions: 4 interactions with chain A, 5 interactions with chain C Hydrogen bonds: A:S.574, A:S.577, A:I.597, C:I.970, C:I.970 Salt bridges: A:R.576, C:K.964, C:K.1017, C:K.1018 ACO.2: 17 residues within 4Å: Chain A: K.964, L.969, I.970, I.973, K.1017, K.1018, L.1021 Chain C: F.572, A.573, S.574, R.576, S.577, I.597, T.625, V.626, G.665 Ligands: OAA.9 9 PLIP interactions: 6 interactions with chain A, 3 interactions with chain C Hydrogen bonds: A:I.970, A:I.973, A:K.1017, C:S.574, C:T.625 Salt bridges: A:K.964, A:K.1017, A:K.1018, C:R.576 ACO.5: 18 residues within 4Å: Chain B: Q.505, F.533, F.572, A.573, S.574, R.576, S.577, I.597, E.599, T.625, G.665 Chain D: K.964, L.969, I.970, I.973, K.1017, K.1018, L.1021 11 PLIP interactions: 5 interactions with chain B, 6 interactions with chain D Hydrogen bonds: B:S.574, B:R.576, B:S.577, B:E.599, B:G.665, D:I.970, D:I.970 Salt bridges: 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: N.346, F.533, F.572, A.573, S.574, R.576, S.577, I.597, E.599, A.624, T.625 Ligands: OAA.12 10 PLIP interactions: 6 interactions with chain B, 4 interactions with chain D Hydrogen bonds: B:I.970, B:I.970, D:S.574, D:S.577, D:I.597 Salt bridges: B:K.964, B:K.1017, B:K.1018, B:K.1018, D:R.576

8 x OAA: OXALOACETATE ION(Non-covalent)

OAA.3: 6 residues within 4Å: Chain A: A.310, N.346, F.347, T.348, N.638 Ligands: ACO.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.346, A:F.347, A:T.348 OAA.4: 7 residues within 4Å: Chain A: H.900, F.935, G.936, D.1026, F.1061, R.1065 Chain B: R.1085 7 PLIP interactions: 1 interactions with chain B, 6 interactions with chain A Hydrogen bonds: B:R.1085, A:H.900, A:G.936, A:R.1065, A:R.1065 Hydrophobic interactions: A:F.935 Salt bridges: A:H.900 OAA.6: 3 residues within 4Å: Chain B: N.346, T.348, N.638 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:N.346 OAA.7: 6 residues within 4Å: Chain B: H.900, V.904, F.935, G.936, D.1026, F.1061 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Salt bridges: A:R.1085, B:H.900 Hydrophobic interactions: B:F.935 Hydrogen bonds: B:G.936 OAA.8: 6 residues within 4Å: Chain C: H.900, V.904, F.935, G.936, D.1026 Chain D: R.1085 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:F.935 Hydrogen bonds: C:G.936 Salt bridges: C:H.900, D:R.1085 OAA.9: 5 residues within 4Å: Chain C: G.309, N.346, F.347, T.348 Ligands: ACO.2 4 PLIP interactions: 4 interactions with chain C Hydrogen bonds: C:G.309, C:A.310, C:T.348 Salt bridges: C:R.507 OAA.11: 8 residues within 4Å: Chain C: R.1085 Chain D: H.900, 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:H.900, D:G.936 Salt bridges: D:H.900, D:R.1065, C:R.1085 OAA.12: 5 residues within 4Å: Chain D: N.346, F.347, T.348, N.638 Ligands: ACO.10 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:N.346, D:F.347 Hydrogen bonds: D:F.347, D:T.348, D:T.348, D:N.638

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

ATP citrate lyase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

ATP citrate lyase

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