SMTL ID : 3avo.1

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

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.55 Å

Oligo State

homo-dimer

Ligands

2 x FLC: CITRATE ANION(Non-covalent)

FLC.1: 12 residues within 4Å: Chain A: G.49, E.52, S.108, V.109, A.110, V.111, G.112, K.113, S.114, T.115, R.118, R.248 17 PLIP interactions: 17 interactions with chain A Hydrogen bonds: A:A.110, A:V.111, A:G.112, A:G.112, A:K.113, A:S.114, A:S.114, A:T.115, A:T.115 Water bridges: A:L.50, A:S.114, A:R.118, A:D.139 Salt bridges: A:K.113, A:K.113, A:R.118, A:R.248 FLC.12: 12 residues within 4Å: Chain B: G.49, E.52, S.108, V.109, A.110, V.111, G.112, K.113, S.114, T.115, R.118, R.248 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:A.110, B:V.111, B:G.112, B:G.112, B:K.113, B:S.114, B:S.114, B:T.115 Water bridges: B:L.50, B:S.114, B:R.118, B:D.139 Salt bridges: B:K.113, B:K.113, B:R.118, B:R.248

2 x PAU: PANTOTHENOIC ACID(Non-covalent)

PAU.2: 13 residues within 4Å: Chain A: V.109, D.139, L.142, K.157, Y.163, Y.187, H.189, Y.192, F.264, I.286, N.287 Ligands: GOL.7, GOL.8 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.109, A:I.286 Hydrogen bonds: A:Y.163, A:Y.163, A:Y.187, A:N.287 PAU.13: 13 residues within 4Å: Chain B: V.109, D.139, L.142, K.157, Y.163, Y.187, H.189, Y.192, F.264, I.286, N.287 Ligands: GOL.18, GOL.19 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:V.109, B:I.286 Hydrogen bonds: B:D.139, B:Y.163, B:Y.187, B:Y.187, B:Y.192, B:N.287

18 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: Y.187, S.188, H.189, L.190, I.195 Ligands: GOL.4 Ligand excluded by PLIP GOL.4: 5 residues within 4Å: Chain A: T.137, D.139, Y.187, H.189 Ligands: GOL.3 Ligand excluded by PLIP GOL.5: 8 residues within 4Å: Chain A: L.216, S.225, F.228, D.229, S.231, R.301, T.303, R.320 Ligand excluded by PLIP GOL.6: 3 residues within 4Å: Chain A: P.185, G.197, E.199 Ligand excluded by PLIP GOL.7: 7 residues within 4Å: Chain A: Y.245, F.249, F.257, F.264, I.282 Ligands: PAU.2, GOL.8 Ligand excluded by PLIP GOL.8: 6 residues within 4Å: Chain A: V.109, Y.245, R.248, N.287 Ligands: PAU.2, GOL.7 Ligand excluded by PLIP GOL.9: 3 residues within 4Å: Chain A: G.46, R.48, R.118 Ligand excluded by PLIP GOL.10: 3 residues within 4Å: Chain A: R.26, R.29, A.30 Ligand excluded by PLIP GOL.11: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP GOL.14: 6 residues within 4Å: Chain B: Y.187, S.188, H.189, L.190, I.195 Ligands: GOL.15 Ligand excluded by PLIP GOL.15: 5 residues within 4Å: Chain B: T.137, D.139, Y.187, H.189 Ligands: GOL.14 Ligand excluded by PLIP GOL.16: 8 residues within 4Å: Chain B: L.216, S.225, F.228, D.229, S.231, R.301, T.303, R.320 Ligand excluded by PLIP GOL.17: 3 residues within 4Å: Chain B: P.185, G.197, E.199 Ligand excluded by PLIP GOL.18: 7 residues within 4Å: Chain B: Y.245, F.249, F.257, F.264, I.282 Ligands: PAU.13, GOL.19 Ligand excluded by PLIP GOL.19: 6 residues within 4Å: Chain B: V.109, Y.245, R.248, N.287 Ligands: PAU.13, GOL.18 Ligand excluded by PLIP GOL.20: 3 residues within 4Å: Chain B: G.46, R.48, R.118 Ligand excluded by PLIP GOL.21: 3 residues within 4Å: Chain B: R.26, R.29, A.30 Ligand excluded by PLIP GOL.22: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chetnani, B. et al., Location and conformation of pantothenate and its derivatives in Mycobacterium tuberculosis pantothenate kinase: insights into enzyme action. Acta Crystallogr.,Sect.D (2011)

Release Date

2011-08-17

Peptides

Pantothenate kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Pantothenate kinase

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