SMTL ID : 1g3u.1

CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS THYMIDYLATE KINASE COMPLEXED WITH THYMIDINE MONOPHOSPHATE (TMP)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: A.154, Q.155, A.161, R.162, R.167 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.162 Water bridges: A:Q.155, A:Q.155 Salt bridges: A:R.162, A:R.167 SO4.2: 7 residues within 4Å: Chain A: V.8, G.10, A.11, G.12, K.13, R.14, R.153 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:G.10, A:A.11, A:G.12, A:K.13, A:R.14 Water bridges: A:K.13, A:K.13, A:K.13, A:T.15, A:R.153, A:R.160, A:R.160 Salt bridges: A:K.13, A:R.153 SO4.5: 5 residues within 4Å: Chain B: A.154, Q.155, A.161, R.162, R.167 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:R.162 Water bridges: B:Q.155, B:Q.155 Salt bridges: B:R.162, B:R.167 SO4.6: 7 residues within 4Å: Chain B: V.8, G.10, A.11, G.12, K.13, R.14, R.153 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:G.10, B:A.11, B:G.12, B:K.13, B:R.14 Water bridges: B:K.13, B:K.13, B:K.13, B:T.15, B:R.153, B:R.160, B:R.160 Salt bridges: B:K.13, B:R.153

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 3 residues within 4Å: Chain A: D.9, E.166 Ligands: TMP.4 5 PLIP interactions: 1 interactions with chain A, 3 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: A:E.166, H2O.1, H2O.1, H2O.2, TMP.4 MG.7: 3 residues within 4Å: Chain B: D.9, E.166 Ligands: TMP.8 5 PLIP interactions: 1 interactions with chain B, 3 Ligand-Water interactions, 1 Ligand-Ligand interactions Metal complexes: B:E.166, H2O.7, H2O.7, H2O.8, TMP.8

2 x TMP: THYMIDINE-5'-PHOSPHATE(Non-covalent)

TMP.4: 12 residues within 4Å: Chain A: D.9, F.36, P.37, Y.39, F.70, R.74, R.95, S.99, N.100, Y.103, Y.165 Ligands: MG.3 13 PLIP interactions: 13 interactions with chain A Hydrophobic interactions: A:Y.103 Hydrogen bonds: A:R.74, A:R.74, A:N.100 Water bridges: A:D.9, A:R.95, A:R.95, A:R.160, A:R.160, A:R.160, A:D.163 Salt bridges: A:R.95 pi-Stacking: A:F.70 TMP.8: 12 residues within 4Å: Chain B: D.9, F.36, P.37, Y.39, F.70, R.74, R.95, S.99, N.100, Y.103, Y.165 Ligands: MG.7 14 PLIP interactions: 14 interactions with chain B Hydrophobic interactions: B:Y.103 Hydrogen bonds: B:Y.39, B:R.74, B:R.74, B:N.100 Water bridges: B:D.9, B:R.95, B:R.95, B:R.160, B:R.160, B:R.160, B:D.163 Salt bridges: B:R.95 pi-Stacking: B:F.70

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li de la Sierra, I. et al., X-ray structure of TMP kinase from Mycobacterium tuberculosis complexed with TMP at 1.95 A resolution. J.Mol.Biol. (2001)

Release Date

2001-10-25

Peptides

THYMIDYLATE KINASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

THYMIDYLATE KINASE

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