SMTL ID : 6hxn.1

Structure of the citryl-CoA lyase core module of Chlorobium limicola ATP citrate lyase (space group P3121)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-tetramer

Ligands

4 x COA: COENZYME A(Non-covalent)

COA.1: 6 residues within 4Å: Chain A: P.156, V.157, I.160, K.205, K.206, L.209 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:K.206 Hydrogen bonds: A:V.157, A:V.157 Water bridges: A:K.205 Salt bridges: A:K.205 COA.4: 8 residues within 4Å: Chain B: K.151, P.156, V.157, I.160, T.202, K.205, K.206, L.209 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:V.157, B:V.157 Water bridges: B:K.205, B:K.205 Salt bridges: B:K.151, B:K.205, B:K.206 COA.5: 6 residues within 4Å: Chain C: P.156, V.157, I.160, K.205, K.206, L.209 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:K.206 Hydrogen bonds: C:V.157, C:V.157 Water bridges: C:K.205 Salt bridges: C:K.205 COA.8: 8 residues within 4Å: Chain D: K.151, P.156, V.157, I.160, T.202, K.205, K.206, L.209 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:V.157, D:V.157 Water bridges: D:K.205, D:K.205 Salt bridges: D:K.151, D:K.205, D:K.206

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

SO4.2: 4 residues within 4Å: Chain A: H.86, V.90, H.162 Chain B: R.259 11 PLIP interactions: 7 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:R.173 Water bridges: A:R.163, A:R.173, A:R.239, A:R.239, B:R.259, B:R.259, B:R.259 Salt bridges: A:H.86, A:H.162, B:R.259 SO4.3: 4 residues within 4Å: Chain A: R.259 Chain B: H.86, V.90, H.162 12 PLIP interactions: 8 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:R.173 Water bridges: B:R.163, B:R.173, B:R.239, B:R.239, B:R.239, A:R.259, A:R.259, A:R.259 Salt bridges: B:H.86, B:H.162, A:R.259 SO4.6: 4 residues within 4Å: Chain C: H.86, V.90, H.162 Chain D: R.259 11 PLIP interactions: 7 interactions with chain C, 4 interactions with chain D Hydrogen bonds: C:R.173 Water bridges: C:R.163, C:R.173, C:R.239, C:R.239, D:R.259, D:R.259, D:R.259 Salt bridges: C:H.86, C:H.162, D:R.259 SO4.7: 4 residues within 4Å: Chain C: R.259 Chain D: H.86, V.90, H.162 12 PLIP interactions: 4 interactions with chain C, 8 interactions with chain D Water bridges: C:R.259, C:R.259, C:R.259, D:R.163, D:R.173, D:R.239, D:R.239, D:R.239 Salt bridges: C:R.259, D:H.86, D:H.162 Hydrogen bonds: D:R.173

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Verschueren, K.H.G. et al., Structure of ATP citrate lyase and the origin of citrate synthase in the Krebs cycle. Nature (2019)

Release Date

2019-04-10

Peptides

ATP-citrate lyase alpha-subunit: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

ATP-citrate lyase alpha-subunit

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