SMTL ID : 1w2h.1

Crystal Structure Of Mycobacterium Tuberculosis Thymidylate Kinase Complexed With Azidothymidine Monophosphate (AZT-MP) (2.0 A Resolution)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

3 x ATM: 3'-AZIDO-3'-DEOXYTHYMIDINE-5'-MONOPHOSPHATE(Non-covalent)

ATM.1: 11 residues within 4Å: Chain A: D.9, F.36, P.37, Y.39, L.52, F.70, R.74, R.95, S.99, N.100, Y.103 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:P.37, A:Y.103 Hydrogen bonds: A:R.74, A:R.74, A:N.100 Water bridges: A:D.9, A:D.9 Salt bridges: A:R.95 pi-Stacking: A:F.70 ATM.2: 9 residues within 4Å: Chain A: V.8, G.10, A.11, G.12, K.13, R.14, T.15, R.149 Ligands: ACT.3 11 PLIP interactions: 11 interactions with chain A Hydrogen bonds: A:G.10, A:G.10, A:A.11, A:G.12, A:K.13, A:R.14 Water bridges: A:D.9, A:D.9, A:K.13, A:D.94 Salt bridges: A:K.13 ATM.6: 13 residues within 4Å: Chain B: D.9, F.36, P.37, Y.39, L.52, F.70, R.74, R.95, Y.96, S.99, N.100, Y.103, Y.165 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:F.36, B:P.37, B:Y.103 Hydrogen bonds: B:Y.39, B:R.74, B:R.74, B:N.100, B:D.163 Water bridges: B:R.14, B:R.95, B:R.95 Salt bridges: B:R.95 pi-Stacking: B:F.70

3 x ACT: ACETATE ION(Non-functional Binders)

ACT.3: 8 residues within 4Å: Chain A: V.8, D.9, G.10, A.11, G.12, K.13, R.14 Ligands: ATM.2 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:K.13, A:R.14 Hydrogen bonds: A:G.10, A:A.11, A:G.12, A:K.13 Water bridges: A:D.9, A:K.13 Salt bridges: A:K.13 ACT.4: 5 residues within 4Å: Chain A: W.119, R.122, I.123, R.127 Chain B: H.56 4 PLIP interactions: 2 interactions with chain B, 2 interactions with chain A Water bridges: B:E.55 Salt bridges: B:H.56, A:R.122, A:R.127 ACT.5: 6 residues within 4Å: Chain B: V.8, G.10, A.11, G.12, K.13, R.14 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:G.12, B:K.13, B:R.14 Salt bridges: B:K.13, B:R.14

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fioravanti, E. et al., The crystal structure of Mycobacterium tuberculosis thymidylate kinase in complex with 3'-azidodeoxythymidine monophosphate suggests a mechanism for competitive inhibition. Biochemistry (2005)

Release Date

2005-01-12

Peptides

THYMIDYLATE KINASE TMK: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

THYMIDYLATE KINASE TMK

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