SMTL ID : 3ag6.1

Crystal Structure of Pantothenate Synthetase from Staphylococcus aureus in complex with pantoyl adenylate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

2 x PAJ: PANTOYL ADENYLATE(Non-covalent)

PAJ.1: 22 residues within 4Å: Chain A: P.29, T.30, M.31, H.35, H.38, M.41, N.59, Q.62, Y.72, V.129, V.132, F.147, G.148, K.150, D.151, Q.154, I.174, D.175, I.176, V.177, K.185 Ligands: ACY.2 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:F.147 Hydrogen bonds: A:M.31, A:Q.62, A:Y.72, A:G.148, A:D.151, A:Q.154, A:Q.154, A:V.177, A:K.185, A:K.185 Salt bridges: A:H.38 PAJ.7: 21 residues within 4Å: Chain B: P.29, T.30, M.31, H.35, H.38, M.41, N.59, Q.62, Y.72, V.132, V.133, F.147, G.148, K.150, D.151, Q.154, D.175, I.176, V.177, K.185 Ligands: ACY.8 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:P.29, B:F.147 Hydrogen bonds: B:M.31, B:Q.62, B:Y.72, B:G.148, B:D.151, B:D.151, B:Q.154, B:V.177, B:K.185 Water bridges: B:P.29, B:H.38 Salt bridges: B:H.38

2 x ACY: ACETIC ACID(Non-functional Binders)

ACY.2: 7 residues within 4Å: Chain A: M.31, Q.62, R.122, H.125, D.151, R.188 Ligands: PAJ.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.62 Water bridges: A:R.122, A:R.188 Salt bridges: A:R.122, A:H.125, A:R.188 ACY.8: 7 residues within 4Å: Chain B: M.31, Q.62, R.122, H.125, D.151, R.188 Ligands: PAJ.7 8 PLIP interactions: 8 interactions with chain B Hydrogen bonds: B:Q.62 Water bridges: B:R.122, B:R.122, B:R.122, B:D.151 Salt bridges: B:R.122, B:H.125, B:R.188

8 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.3: 1 residues within 4Å: Chain A: D.216 No protein-ligand interaction detected (PLIP) PG4.4: 9 residues within 4Å: Chain A: K.9, Q.12, H.13, K.16 Chain B: D.143, Y.144, A.168, V.169, E.170 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.16 PG4.5: 6 residues within 4Å: Chain A: E.179, N.189, L.192, E.194, R.197, Q.198 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.194, A:R.197 PG4.6: 2 residues within 4Å: Chain A: D.115, V.116 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.115, A:D.115 PG4.9: 8 residues within 4Å: Chain A: D.143, A.168, V.169, E.170 Chain B: K.9, Q.12, H.13, K.16 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.9, B:K.16 Water bridges: B:K.16 PG4.10: 6 residues within 4Å: Chain B: P.60, L.61, F.63, G.64, P.65, F.69 No protein-ligand interaction detected (PLIP) PG4.11: 4 residues within 4Å: Chain B: E.179, N.189, L.192, R.197 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.197 PG4.12: 7 residues within 4Å: Chain B: I.176, R.178, G.182, S.204, L.208, N.277, I.278 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.178 Water bridges: B:I.176, B:E.179, B:N.277, B:I.279

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Satoh, A. et al., Substrate-induced closing of the active site revealed by the crystal structure of pantothenate synthetase from Staphylococcus aureus. Biochemistry (2010)

Release Date

2010-07-21

Peptides

Pantothenate synthetase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Pantothenate synthetase

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