SMTL ID : 2a86.1

Crystal structure of A Pantothenate synthetase complexed with AMP and beta-alanine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 3 residues within 4Å: Chain A: R.56, P.58, R.154 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.56, A:R.154

2 x AMP: ADENOSINE MONOPHOSPHATE(Non-covalent)

AMP.2: 19 residues within 4Å: Chain A: P.38, T.39, M.40, H.44, G.46, H.47, L.50, Y.82, F.157, G.158, K.160, D.161, Q.164, P.185, T.186, V.187, M.195 Ligands: BAL.3, GOL.6 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:M.40, A:Y.82, A:G.158, A:D.161, A:D.161, A:Q.164, A:V.187, A:V.187, A:M.195 Water bridges: A:M.40, A:Y.82, A:S.197 Salt bridges: A:H.47 AMP.11: 17 residues within 4Å: Chain B: P.38, T.39, M.40, H.44, G.46, H.47, L.50, F.157, G.158, K.160, D.161, Q.164, P.185, T.186, V.187, M.195 Ligands: GOL.12 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:M.40, B:G.158, B:D.161, B:D.161, B:Q.164, B:V.187, B:V.187, B:M.195 Salt bridges: B:H.47

2 x BAL: BETA-ALANINE(Non-covalent)

BAL.3: 7 residues within 4Å: Chain A: M.40, Q.72, H.135, D.161, Q.164 Ligands: AMP.2, GOL.6 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.72, A:D.161 Water bridges: A:Y.82 Salt bridges: A:H.135, A:R.198 BAL.4: 6 residues within 4Å: Chain A: P.17, A.21, Q.148, I.149 Chain B: N.176, D.178 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:N.176, B:N.176, A:R.151

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 10 residues within 4Å: Chain A: M.109, Y.110, P.111, D.112, G.113, L.114, R.115, T.116, K.145 Chain B: D.174 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:D.112, A:R.115, A:K.145, B:D.174 Water bridges: B:D.174 GOL.6: 7 residues within 4Å: Chain A: M.40, Q.72, V.139, V.142, Q.164 Ligands: AMP.2, BAL.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.72, A:Q.72, A:Q.164 GOL.7: 4 residues within 4Å: Chain A: P.83, R.84, R.200, Y.201 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.84, A:R.84, A:R.200, A:R.200, A:Y.201 GOL.8: 7 residues within 4Å: Chain A: L.114, R.115, T.117 Chain B: Q.119, P.120, G.121, P.122 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.115, A:T.117 GOL.12: 6 residues within 4Å: Chain B: Q.72, V.139, V.142, V.143, Q.164 Ligands: AMP.11 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.72, B:Q.72, B:Q.164

5 x EOH: ETHANOL(Non-functional Binders)

EOH.9: 6 residues within 4Å: Chain A: L.147, R.151, P.152, D.178, V.179 Chain B: R.151 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.152 EOH.10: 1 residues within 4Å: Chain A: N.176 1 PLIP interactions: 1 interactions with chain A Water bridges: A:D.178 EOH.13: 4 residues within 4Å: Chain B: K.160, D.161, S.196, R.198 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.161 EOH.14: 2 residues within 4Å: Chain B: H.222, T.225 No protein-ligand interaction detected (PLIP) EOH.15: 5 residues within 4Å: Chain B: G.244, A.246, R.273, L.274, G.275 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:A.246 Hydrogen bonds: B:G.244, B:G.275 Water bridges: B:Q.206

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Wang, S. et al., Crystal Structure of the Pantothenate Synthetase from Mycobacterium tuberculosis, Snapshots of the Enzyme in Action. Biochemistry (2006)

Release Date

2006-02-21

Peptides

Pantoate--beta-alanine ligase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Pantoate--beta-alanine ligase

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