SMTL ID : 5xlw.1

Mycobacterium tuberculosis Pantothenate kinase mutant F247A/F254A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.26 Å

Oligo State

homo-dimer

Ligands

20 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 5 residues within 4Å: Chain A: F.161, S.164, Y.171, A.172, C.173 Ligand excluded by PLIP EDO.2: 6 residues within 4Å: Chain A: L.138, Q.139, N.142, L.143, M.144, H.145 Ligand excluded by PLIP EDO.3: 4 residues within 4Å: Chain A: N.204, L.212, M.213, V.214 Ligand excluded by PLIP EDO.4: 3 residues within 4Å: Chain A: S.169, D.170, Y.171 Ligand excluded by PLIP EDO.5: 8 residues within 4Å: Chain A: V.126, T.127, G.130, A.174, P.175, V.176, Y.177, Q.190 Ligand excluded by PLIP EDO.6: 6 residues within 4Å: Chain A: S.215, F.218, F.220, S.221, R.291, T.293 Ligand excluded by PLIP EDO.7: 4 residues within 4Å: Chain A: A.157, C.173, P.175 Ligands: EDO.11 Ligand excluded by PLIP EDO.8: 3 residues within 4Å: Chain A: R.289, R.306, R.308 Ligand excluded by PLIP EDO.9: 4 residues within 4Å: Chain A: Y.177, S.178, H.179, L.180 Ligand excluded by PLIP EDO.10: 3 residues within 4Å: Chain A: V.99, R.238 Ligands: 1PE.13 Ligand excluded by PLIP EDO.11: 4 residues within 4Å: Chain A: A.157, R.160 Ligands: EDO.7, EDO.12 Ligand excluded by PLIP EDO.12: 3 residues within 4Å: Chain A: N.154, R.156 Ligands: EDO.11 Ligand excluded by PLIP EDO.17: 6 residues within 4Å: Chain B: S.215, F.218, F.220, S.221, R.291, T.293 Ligand excluded by PLIP EDO.18: 3 residues within 4Å: Chain B: R.289, R.306, R.308 Ligand excluded by PLIP EDO.19: 5 residues within 4Å: Chain B: Q.43, G.102, T.105, K.298, H.302 Ligand excluded by PLIP EDO.20: 1 residues within 4Å: Chain B: Q.17 Ligand excluded by PLIP EDO.21: 4 residues within 4Å: Chain B: Y.10, R.289, P.290, V.295 Ligand excluded by PLIP EDO.22: 4 residues within 4Å: Chain B: P.150, R.155, Q.207, T.208 Ligand excluded by PLIP EDO.23: 3 residues within 4Å: Chain B: P.7, S.8, K.311 Ligand excluded by PLIP EDO.24: 4 residues within 4Å: Chain B: S.104, H.179, R.238, M.242 Ligand excluded by PLIP

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.13: 9 residues within 4Å: Chain A: D.129, K.147, H.179, Y.182, Y.235, I.272, I.276, N.277 Ligands: EDO.10 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.235 Water bridges: A:K.103, A:N.277

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

SO4.14: 8 residues within 4Å: Chain A: S.98, V.99, A.100, V.101, G.102, K.103, S.104, R.238 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:A.100, A:V.101, A:G.102, A:K.103, A:S.104 Water bridges: A:K.103, A:K.103, A:T.105 Salt bridges: A:K.103, A:R.238 SO4.15: 4 residues within 4Å: Chain A: P.85, D.86, R.87, G.168 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.86, A:D.86, A:D.86, A:R.87, A:G.168 Salt bridges: A:R.87 SO4.25: 4 residues within 4Å: Chain B: P.85, D.86, R.87, G.168 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:D.86, B:D.86, B:R.87 Salt bridges: B:R.87 SO4.26: 8 residues within 4Å: Chain B: S.98, V.99, A.100, V.101, G.102, K.103, S.104, R.238 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:A.100, B:V.101, B:G.102, B:K.103, B:S.104 Water bridges: B:G.102, B:K.103, B:K.103, B:T.105 Salt bridges: B:K.103, B:R.238

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.16: 3 residues within 4Å: Chain B: D.129, K.147, N.277 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.277

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Paul, A. et al., Biochemical and structural studies of mutants indicate concerted movement of the dimer interface and ligand-binding region of Mycobacterium tuberculosis pantothenate kinase. Acta Crystallogr F Struct Biol Commun (2017)

Release Date

2018-05-16

Peptides

Pantothenate kinase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
A

Pantothenate kinase