SMTL ID : 2zsb.1

Pantothenate kinase from Mycobacterium tuberculosis (MtPanK) in complex with ADP, obtained through soaking of native enzyme crystals with the ligand

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.75 Å

Oligo State

homo-dimer

Ligands

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 13 residues within 4Å: Chain A: S.98, V.99, A.100, V.101, G.102, K.103, S.104, H.179, E.201, R.238, M.242, A.246, F.247 16 PLIP interactions: 16 interactions with chain A Hydrogen bonds: A:A.100, A:V.101, A:G.102, A:K.103, A:S.104, A:S.104, A:S.104, A:S.104, A:R.238 Water bridges: A:L.40, A:T.105, A:H.179 Salt bridges: A:K.103, A:K.103, A:R.238 pi-Stacking: A:H.179 ADP.8: 13 residues within 4Å: Chain B: S.98, V.99, A.100, V.101, G.102, K.103, S.104, H.179, E.201, R.238, M.242, A.246, F.247 16 PLIP interactions: 16 interactions with chain B Hydrogen bonds: B:A.100, B:V.101, B:G.102, B:K.103, B:S.104, B:S.104, B:S.104, B:S.104, B:R.238 Water bridges: B:L.40, B:T.105, B:H.179 Salt bridges: B:K.103, B:K.103, B:R.238 pi-Stacking: B:H.179

12 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: Y.177, S.178, H.179, L.180 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.177, A:H.179, A:L.180 GOL.3: 7 residues within 4Å: Chain A: S.215, F.218, F.220, S.221, R.291, T.293, R.310 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.215, A:S.221 Water bridges: A:R.310 GOL.4: 3 residues within 4Å: Chain A: R.122, R.193, H.194 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.122 GOL.5: 3 residues within 4Å: Chain A: G.36, R.38, R.108 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.38 GOL.6: 5 residues within 4Å: Chain A: R.146, F.149, E.151, E.283, N.284 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.146, A:E.151, A:E.283, A:E.283, A:E.283, A:N.284 GOL.7: 5 residues within 4Å: Chain A: A.115, P.121, R.122, V.123, D.124 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Q.111, A:P.121, A:V.123, A:D.124 GOL.9: 4 residues within 4Å: Chain B: Y.177, S.178, H.179, L.180 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.177, B:H.179, B:L.180 GOL.10: 7 residues within 4Å: Chain B: S.215, F.218, F.220, S.221, R.291, T.293, R.310 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.215, B:S.221 Water bridges: B:R.310 GOL.11: 3 residues within 4Å: Chain B: R.122, R.193, H.194 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.122 GOL.12: 3 residues within 4Å: Chain B: G.36, R.38, R.108 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.38 GOL.13: 5 residues within 4Å: Chain B: R.146, F.149, E.151, E.283, N.284 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.146, B:E.151, B:E.283, B:E.283, B:N.284 GOL.14: 5 residues within 4Å: Chain B: A.115, P.121, R.122, V.123, D.124 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.111, B:P.121, B:V.123, B:D.124, B:D.124

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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