SMTL ID : 3af3.1

Pantothenate kinase from Mycobacterium tuberculosis (MtPanK) in complex with GMPPCP and Pantothenate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.35 Å

Oligo State

homo-dimer

Ligands

2 x GCP: PHOSPHOMETHYLPHOSPHONIC ACID GUANYLATE ESTER(Non-covalent)

GCP.1: 16 residues within 4Å: Chain A: G.39, E.42, V.99, A.100, V.101, G.102, K.103, S.104, T.105, R.108, H.179, R.238, M.242, A.246 Ligands: PAU.2, GOL.3 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:E.42, A:A.100, A:G.102, A:K.103, A:K.103, A:K.103, A:S.104, A:S.104, A:T.105, A:R.108, A:R.108, A:R.238 Water bridges: A:H.179 Salt bridges: A:R.108, A:R.238 pi-Stacking: A:H.179, A:H.179 GCP.12: 16 residues within 4Å: Chain B: G.39, E.42, V.99, A.100, V.101, G.102, K.103, S.104, T.105, R.108, H.179, R.238, M.242, A.246 Ligands: PAU.13, GOL.14 20 PLIP interactions: 20 interactions with chain B Hydrogen bonds: B:E.42, B:E.42, B:A.100, B:G.102, B:K.103, B:K.103, B:K.103, B:S.104, B:S.104, B:T.105, B:T.105, B:R.108, B:R.108, B:H.179, B:R.238 Water bridges: B:H.179 Salt bridges: B:R.108, B:R.238 pi-Stacking: B:H.179, B:H.179

2 x PAU: PANTOTHENOIC ACID(Non-covalent)

PAU.2: 8 residues within 4Å: Chain A: Y.235, R.238, F.239, M.242, F.247, F.254 Ligands: GCP.1, GOL.9 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.235, A:R.238, A:F.239, A:F.239 Hydrogen bonds: A:R.238 PAU.13: 8 residues within 4Å: Chain B: Y.235, R.238, F.239, M.242, F.247, F.254 Ligands: GCP.12, GOL.20 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:Y.235, B:R.238, B:F.239, B:F.239 Hydrogen bonds: B:Y.235, B:R.238

18 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: G.36, L.37, R.38, G.39, R.108 Ligands: GCP.1 Ligand excluded by PLIP GOL.4: 7 residues within 4Å: Chain A: F.218, D.219, S.221, R.291, T.293, R.310 Ligands: GOL.22 Ligand excluded by PLIP GOL.5: 6 residues within 4Å: Chain A: R.15, Q.43, D.45, E.48, S.303, I.304 Ligand excluded by PLIP GOL.6: 4 residues within 4Å: Chain A: A.174, P.175, G.187, E.189 Ligand excluded by PLIP GOL.7: 4 residues within 4Å: Chain A: Y.177, S.178, H.179, L.180 Ligand excluded by PLIP GOL.8: 4 residues within 4Å: Chain A: S.263, V.266, V.267, R.270 Ligand excluded by PLIP GOL.9: 5 residues within 4Å: Chain A: K.147, Y.182, Y.235, N.277 Ligands: PAU.2 Ligand excluded by PLIP GOL.10: 4 residues within 4Å: Chain A: V.11, E.12, F.13, Q.17 Ligand excluded by PLIP GOL.11: 7 residues within 4Å: Chain A: L.70, T.74 Chain B: Q.63, T.293, R.310, L.312 Ligands: GOL.15 Ligand excluded by PLIP GOL.14: 6 residues within 4Å: Chain B: G.36, L.37, R.38, G.39, R.108 Ligands: GCP.12 Ligand excluded by PLIP GOL.15: 7 residues within 4Å: Chain B: F.218, D.219, S.221, R.291, T.293, R.310 Ligands: GOL.11 Ligand excluded by PLIP GOL.16: 6 residues within 4Å: Chain B: R.15, Q.43, D.45, E.48, S.303, I.304 Ligand excluded by PLIP GOL.17: 4 residues within 4Å: Chain B: A.174, P.175, G.187, E.189 Ligand excluded by PLIP GOL.18: 4 residues within 4Å: Chain B: Y.177, S.178, H.179, L.180 Ligand excluded by PLIP GOL.19: 4 residues within 4Å: Chain B: S.263, V.266, V.267, R.270 Ligand excluded by PLIP GOL.20: 5 residues within 4Å: Chain B: K.147, Y.182, Y.235, N.277 Ligands: PAU.13 Ligand excluded by PLIP GOL.21: 4 residues within 4Å: Chain B: V.11, E.12, F.13, Q.17 Ligand excluded by PLIP GOL.22: 7 residues within 4Å: Chain A: Q.63, T.293, R.310, L.312 Chain B: L.70, T.74 Ligands: GOL.4 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chetnani, B. et al., M. tuberculosis pantothenate kinase: dual substrate specificity and unusual changes in ligand locations. J.Mol.Biol. (2010)

Release Date

2010-05-26

Peptides

Pantothenate kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Pantothenate kinase

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