SMTL ID : 8v4o.1

Crystal structure of Acetyl-CoA synthetase 2 in complex with AMP from Candida albicans

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-trimer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: T.639, R.640, S.641 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.640, A:S.641 SO4.2: 3 residues within 4Å: Chain A: K.643, I.644, R.646 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.644 Salt bridges: A:R.646 SO4.3: 4 residues within 4Å: Chain A: Q.68, H.86, T.87, V.88 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:V.88 SO4.4: 4 residues within 4Å: Chain A: R.395, S.421, D.423, I.424 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.421, A:I.424 Water bridges: A:S.421 Salt bridges: A:R.395 SO4.5: 5 residues within 4Å: Chain A: E.105 Chain B: E.105 Chain C: E.105 Ligands: SO4.11, SO4.12 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:E.105 Water bridges: A:S.282, A:S.282 SO4.9: 4 residues within 4Å: Chain B: T.300, K.515, R.647, R.650 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:T.300, B:T.300 Salt bridges: B:K.515, B:R.650 SO4.10: 5 residues within 4Å: Chain B: G.335, D.336, W.339, T.341, A.387 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.336, B:T.341 SO4.11: 1 residues within 4Å: Ligands: SO4.5 No protein-ligand interaction detected (PLIP) SO4.12: 9 residues within 4Å: Chain A: D.82, H.83 Chain B: D.82, H.83, E.105 Chain C: D.82, H.83 Ligands: SO4.5, SO4.13 3 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C, 1 interactions with chain A Salt bridges: B:H.83, C:H.83, A:H.83 SO4.13: 3 residues within 4Å: Chain C: D.82, H.83 Ligands: SO4.12 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain C Salt bridges: B:H.83 Water bridges: C:H.83

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.6: 1 residues within 4Å: Chain A: K.76 Ligand excluded by PLIP CL.7: 5 residues within 4Å: Chain A: G.296, S.297, K.302, K.515, T.519 Ligand excluded by PLIP CL.14: 1 residues within 4Å: Chain B: S.80 Ligand excluded by PLIP

3 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.8: 15 residues within 4Å: Chain A: G.417, E.418, P.419, D.441, T.442, Y.443, W.444, Q.445, T.446, D.532, I.544, R.547, N.553, G.556, R.558 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:G.417, A:D.441, A:W.444, A:Q.445, A:T.446, A:T.446, A:T.446, A:D.532, A:R.547, A:N.553 Salt bridges: A:R.558 pi-Stacking: A:Y.443, A:Y.443 AMP.15: 13 residues within 4Å: Chain B: I.340, G.417, E.418, P.419, D.441, T.442, Y.443, W.444, Q.445, T.446, D.532, I.544, R.547 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.417, B:D.441, B:W.444, B:D.532 pi-Stacking: B:Y.443, B:Y.443 AMP.16: 13 residues within 4Å: Chain C: V.416, G.417, E.418, P.419, D.441, T.442, Y.443, W.444, Q.445, T.446, D.532, I.544, R.547 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:T.442, C:W.444, C:Q.445, C:T.446, C:T.446, C:T.446, C:D.532 pi-Stacking: C:Y.443, C:Y.443

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lovell, S. et al., Crystal structure of Acetyl-CoA synthetase 2 in complex with AMP from Candida albicans. To be published

Release Date

2023-12-06

Peptides

Acetyl-coenzyme A synthetase 2: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Acetyl-coenzyme A synthetase 2

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