SMTL ID : 2wdo.1

Crystal structure of the S. coelicolor AcpS in complex with acetyl- CoA at 1.5 A

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.56 Å

Oligo State

homo-trimer

Ligands

3 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 6 residues within 4Å: Chain A: S.129, D.131 Chain C: D.29, V.30 Ligands: ACO.2, COA.3 2 PLIP interactions: 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:V.30, H2O.19 MG.6: 6 residues within 4Å: Chain A: D.29, V.30 Chain B: S.129, D.131 Ligands: ACO.7, COA.8 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:V.30, H2O.1 MG.11: 6 residues within 4Å: Chain B: D.29, V.30 Chain C: S.129, D.131 Ligands: ACO.12, COA.13 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:V.30, H2O.10

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

ACO.2: 24 residues within 4Å: Chain A: S.68, R.72, G.101, G.102, R.103, P.104, L.128, S.129, H.130 Chain C: D.29, K.76, E.77, L.79, A.80, K.81, G.84, A.85, L.89, L.90, W.91, A.94, V.112 Ligands: MG.1, COA.3 16 PLIP interactions: 8 interactions with chain C, 8 interactions with chain A Hydrophobic interactions: C:L.79, C:K.81, C:W.91, C:A.94, C:V.112 Hydrogen bonds: C:A.85, A:S.129, A:H.130 Salt bridges: C:K.81, C:K.81, A:R.72, A:H.130 Water bridges: A:R.64, A:S.68, A:R.72, A:R.72 ACO.7: 24 residues within 4Å: Chain A: D.29, K.76, E.77, L.79, A.80, K.81, G.84, A.85, L.89, L.90, W.91, A.94, V.112 Chain B: S.68, R.72, G.101, G.102, R.103, P.104, L.128, S.129, H.130 Ligands: MG.6, COA.8 17 PLIP interactions: 8 interactions with chain B, 9 interactions with chain A Hydrogen bonds: B:S.129, B:H.130, A:D.29, A:A.85 Water bridges: B:R.64, B:S.68, B:R.72, B:R.72 Salt bridges: B:R.72, B:H.130, A:K.81, A:K.81 Hydrophobic interactions: A:L.79, A:K.81, A:W.91, A:A.94, A:V.112 ACO.12: 24 residues within 4Å: Chain B: D.29, K.76, E.77, L.79, A.80, K.81, G.84, A.85, L.89, L.90, W.91, A.94, V.112 Chain C: S.68, R.72, G.101, G.102, R.103, P.104, L.128, S.129, H.130 Ligands: MG.11, COA.13 17 PLIP interactions: 8 interactions with chain C, 9 interactions with chain B Hydrogen bonds: C:S.129, C:H.130, B:D.29, B:A.85 Water bridges: C:R.64, C:S.68, C:R.72, C:R.72 Salt bridges: C:R.72, C:H.130, B:K.81, B:K.81 Hydrophobic interactions: B:L.79, B:K.81, B:W.91, B:A.94, B:V.112

3 x COA: COENZYME A(Non-covalent)

COA.3: 23 residues within 4Å: Chain A: S.68, R.72, G.101, G.102, R.103, P.104, L.128, S.129, H.130 Chain C: D.29, K.76, E.77, A.80, K.81, G.84, A.85, L.89, L.90, W.91, A.94, V.112 Ligands: MG.1, ACO.2 16 PLIP interactions: 6 interactions with chain C, 10 interactions with chain A Hydrophobic interactions: C:A.80, C:K.81, C:W.91 Hydrogen bonds: C:K.81, A:G.101, A:S.129, A:H.130 Salt bridges: C:K.81, C:K.81, A:R.72, A:H.130 Water bridges: A:R.64, A:S.68, A:R.72, A:R.72, A:R.103 COA.8: 23 residues within 4Å: Chain A: D.29, K.76, E.77, A.80, K.81, G.84, A.85, L.89, L.90, W.91, A.94, V.112 Chain B: S.68, R.72, G.101, G.102, R.103, P.104, L.128, S.129, H.130 Ligands: MG.6, ACO.7 16 PLIP interactions: 10 interactions with chain B, 6 interactions with chain A Hydrogen bonds: B:G.101, B:S.129, B:H.130, A:K.81 Water bridges: B:R.64, B:S.68, B:R.72, B:R.72, B:R.103 Salt bridges: B:R.72, B:H.130, A:K.81, A:K.81 Hydrophobic interactions: A:A.80, A:K.81, A:W.91 COA.13: 23 residues within 4Å: Chain B: D.29, K.76, E.77, A.80, K.81, G.84, A.85, L.89, L.90, W.91, A.94, V.112 Chain C: S.68, R.72, G.101, G.102, R.103, P.104, L.128, S.129, H.130 Ligands: MG.11, ACO.12 16 PLIP interactions: 10 interactions with chain C, 6 interactions with chain B Hydrogen bonds: C:G.101, C:S.129, C:H.130, B:K.81 Water bridges: C:R.64, C:S.68, C:R.72, C:R.72, C:R.103 Salt bridges: C:R.72, C:H.130, B:K.81, B:K.81 Hydrophobic interactions: B:A.80, B:K.81, B:W.91

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 11 residues within 4Å: Chain A: M.21, S.22, E.142 Chain B: M.21, S.22, I.23, E.142 Chain C: M.21, S.22 Ligands: GOL.9, GOL.14 6 PLIP interactions: 2 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:M.21, B:E.142, A:E.142, A:E.142 Water bridges: A:M.21, A:M.21 GOL.9: 11 residues within 4Å: Chain A: M.21, S.22 Chain B: M.21, S.22, E.142 Chain C: M.21, S.22, I.23, E.142 Ligands: GOL.4, GOL.14 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:M.21, C:E.142, B:E.142 GOL.14: 11 residues within 4Å: Chain A: M.21, S.22, I.23, E.142 Chain B: M.21, S.22 Chain C: M.21, S.22, E.142 Ligands: GOL.4, GOL.9 6 PLIP interactions: 1 interactions with chain C, 5 interactions with chain A Hydrogen bonds: C:E.142, A:M.21, A:E.142, A:E.142 Water bridges: A:M.21, A:M.21

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

SO4.5: 2 residues within 4Å: Chain A: T.109, G.110 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.110 Water bridges: A:T.109, A:G.110 SO4.10: 2 residues within 4Å: Chain B: T.109, G.110 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.110 Water bridges: B:T.109, B:G.110 SO4.15: 2 residues within 4Å: Chain C: T.109, G.110 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:G.110 Water bridges: C:G.110

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dall'Aglio, P. et al., Analysis of Streptomyces Coelicolor Phosphopantetheinyl Transferase, Acps, Reveals the Basis for Relaxed Substrate Specificity. Biochemistry (2011)

Release Date

2010-04-21

Peptides

HOLO-[ACYL-CARRIER-PROTEIN] SYNTHASE: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

HOLO-[ACYL-CARRIER-PROTEIN] SYNTHASE

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