SMTL ID : 2zs7.1

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

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.65 Å

Oligo State

homo-dimer

Ligands

4 x FLC: CITRATE ANION(Non-covalent)

FLC.1: 14 residues within 4Å: Chain A: G.39, E.42, V.99, A.100, V.101, G.102, K.103, S.104, T.105, R.238 Ligands: FLC.2, GOL.6, GOL.10, NA.15 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:G.39, A:A.100, A:A.100, A:G.102, A:K.103, A:S.104, A:T.105 Salt bridges: A:K.103, A:K.103, A:R.108, A:R.238 FLC.2: 11 residues within 4Å: Chain A: V.99, K.103, D.129, K.147, Y.177, H.179, L.203, N.277 Ligands: FLC.1, NA.14, NA.15 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.203 Hydrogen bonds: A:Y.177, A:H.179, A:Y.182, A:N.277 Salt bridges: A:K.103, A:H.179 FLC.16: 14 residues within 4Å: Chain B: G.39, E.42, V.99, A.100, V.101, G.102, K.103, S.104, T.105, R.238 Ligands: FLC.17, GOL.21, GOL.25, NA.30 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:G.39, B:A.100, B:A.100, B:G.102, B:K.103, B:S.104, B:T.105, B:T.105 Salt bridges: B:K.103, B:K.103, B:R.108, B:R.238 FLC.17: 11 residues within 4Å: Chain B: V.99, K.103, D.129, K.147, Y.177, H.179, L.203, N.277 Ligands: FLC.16, NA.29, NA.30 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:L.203 Hydrogen bonds: B:H.179, B:N.277 Salt bridges: B:K.103, B:H.179

22 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 3 residues within 4Å: Chain A: R.289, P.290, R.308 Ligand excluded by PLIP GOL.4: 7 residues within 4Å: Chain A: S.215, F.218, D.219, S.221, R.291, T.293, R.310 Ligand excluded by PLIP GOL.5: 7 residues within 4Å: Chain A: R.15, Q.43, I.44, D.45, L.47, E.48, S.303 Ligand excluded by PLIP GOL.6: 7 residues within 4Å: Chain A: G.39, L.40, S.104, R.108, R.238 Ligands: FLC.1, GOL.10 Ligand excluded by PLIP GOL.7: 3 residues within 4Å: Chain A: Y.235, F.247, F.254 Ligand excluded by PLIP GOL.8: 7 residues within 4Å: Chain A: Q.207, T.208, P.287, T.288, R.291 Chain B: G.209, P.210 Ligand excluded by PLIP GOL.9: 4 residues within 4Å: Chain A: Y.133, N.154, R.156, R.160 Ligand excluded by PLIP GOL.10: 6 residues within 4Å: Chain A: H.179, R.238, M.242 Ligands: FLC.1, GOL.6, NA.15 Ligand excluded by PLIP GOL.11: 5 residues within 4Å: Chain A: V.176, Y.177, S.178, H.179, L.180 Ligand excluded by PLIP GOL.12: 3 residues within 4Å: Chain A: R.122, R.193, H.194 Ligand excluded by PLIP GOL.13: 4 residues within 4Å: Chain A: R.160, S.164, A.172, C.173 Ligand excluded by PLIP GOL.18: 3 residues within 4Å: Chain B: R.289, P.290, R.308 Ligand excluded by PLIP GOL.19: 7 residues within 4Å: Chain B: S.215, F.218, D.219, S.221, R.291, T.293, R.310 Ligand excluded by PLIP GOL.20: 7 residues within 4Å: Chain B: R.15, Q.43, I.44, D.45, L.47, E.48, S.303 Ligand excluded by PLIP GOL.21: 7 residues within 4Å: Chain B: G.39, L.40, S.104, R.108, R.238 Ligands: FLC.16, GOL.25 Ligand excluded by PLIP GOL.22: 3 residues within 4Å: Chain B: Y.235, F.247, F.254 Ligand excluded by PLIP GOL.23: 7 residues within 4Å: Chain A: G.209, P.210 Chain B: Q.207, T.208, P.287, T.288, R.291 Ligand excluded by PLIP GOL.24: 4 residues within 4Å: Chain B: Y.133, N.154, R.156, R.160 Ligand excluded by PLIP GOL.25: 6 residues within 4Å: Chain B: H.179, R.238, M.242 Ligands: FLC.16, GOL.21, NA.30 Ligand excluded by PLIP GOL.26: 5 residues within 4Å: Chain B: V.176, Y.177, S.178, H.179, L.180 Ligand excluded by PLIP GOL.27: 3 residues within 4Å: Chain B: R.122, R.193, H.194 Ligand excluded by PLIP GOL.28: 4 residues within 4Å: Chain B: R.160, S.164, A.172, C.173 Ligand excluded by PLIP

4 x NA: SODIUM ION(Non-functional Binders)

NA.14: 4 residues within 4Å: Chain A: S.104, D.129, E.201 Ligands: FLC.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.104, A:E.201 NA.15: 3 residues within 4Å: Ligands: FLC.1, FLC.2, GOL.10 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.238 NA.29: 4 residues within 4Å: Chain B: S.104, D.129, E.201 Ligands: FLC.17 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.104, B:E.201 NA.30: 3 residues within 4Å: Ligands: FLC.16, FLC.17, GOL.25 1 PLIP interactions: 1 interactions with chain B Water bridges: B:R.238

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chetnani, B. et al., Mycobacterium tuberculosis pantothenate kinase: possible changes in location of ligands during enzyme action. Acta Crystallogr.,Sect.D (2009)

Release Date

2009-07-21

Peptides

Pantothenate kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Pantothenate kinase

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