SMTL ID : 4zqn.1

Crystal Structure of the Catalytic Domain of the Inosine Monophosphate Dehydrogenase from Mycobacterium tuberculosis in the complex with IMP and the inhibitor P41

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-tetramer

Ligands

4 x IMP: INOSINIC ACID(Non-covalent)

IMP.1: 22 residues within 4Å: Chain A: S.86, M.88, N.191, G.216, S.217, I.218, C.219, D.252, G.253, G.254, M.273, L.274, G.275, S.276, Y.299, G.301, M.302, G.303, S.304, E.336, G.337 Ligands: 4QO.2 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:S.86, A:N.191, A:S.217, A:D.252, A:G.254, A:G.275, A:S.276, A:S.276, A:S.276, A:Y.299, A:M.302, A:G.303, A:E.336 Water bridges: A:G.214, A:G.216, A:T.221, A:G.253, A:S.276, A:S.276, A:L.277 IMP.3: 22 residues within 4Å: Chain B: S.86, M.88, N.191, G.216, S.217, I.218, C.219, D.252, G.253, G.254, M.273, L.274, G.275, S.276, Y.299, G.301, M.302, G.303, S.304, E.336, G.337 Ligands: 4QO.4 20 PLIP interactions: 20 interactions with chain B Hydrogen bonds: B:S.86, B:N.191, B:S.217, B:D.252, B:G.254, B:G.275, B:S.276, B:S.276, B:S.276, B:Y.299, B:M.302, B:G.303, B:E.336 Water bridges: B:G.214, B:G.216, B:T.221, B:G.253, B:S.276, B:S.276, B:L.277 IMP.5: 22 residues within 4Å: Chain C: S.86, M.88, N.191, G.216, S.217, I.218, C.219, D.252, G.253, G.254, M.273, L.274, G.275, S.276, Y.299, G.301, M.302, G.303, S.304, E.336, G.337 Ligands: 4QO.6 20 PLIP interactions: 20 interactions with chain C Hydrogen bonds: C:S.86, C:N.191, C:S.217, C:D.252, C:G.254, C:G.275, C:S.276, C:S.276, C:S.276, C:Y.299, C:M.302, C:G.303, C:E.336 Water bridges: C:G.214, C:G.216, C:T.221, C:G.253, C:S.276, C:S.276, C:L.277 IMP.7: 22 residues within 4Å: Chain D: S.86, M.88, N.191, G.216, S.217, I.218, C.219, D.252, G.253, G.254, M.273, L.274, G.275, S.276, Y.299, G.301, M.302, G.303, S.304, E.336, G.337 Ligands: 4QO.8 20 PLIP interactions: 20 interactions with chain D Hydrogen bonds: D:S.86, D:N.191, D:S.217, D:D.252, D:G.254, D:G.275, D:S.276, D:S.276, D:S.276, D:Y.299, D:M.302, D:G.303, D:E.336 Water bridges: D:G.214, D:G.216, D:T.221, D:G.253, D:S.276, D:S.276, D:L.277

4 x 4QO: 2-chloro-N,N-dimethyl-5-[({2-[3-(prop-1-en-2-yl)phenyl]propan-2-yl}carbamoyl)amino]benzamide(Non-covalent)

4QO.2: 15 residues within 4Å: Chain A: A.163, H.164, N.167, T.221, M.302, G.303, M.308, V.334, E.336 Chain C: V.62, V.63, P.64, G.364, Y.365 Ligands: IMP.1 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain C Hydrophobic interactions: A:A.163, C:Y.365 Hydrogen bonds: A:E.336, A:E.336 Water bridges: A:E.336, A:E.336 Halogen bonds: A:N.167 4QO.4: 15 residues within 4Å: Chain B: A.163, H.164, N.167, T.221, M.302, G.303, M.308, V.334, E.336 Chain D: V.62, V.63, P.64, G.364, Y.365 Ligands: IMP.3 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain D Hydrophobic interactions: B:A.163, D:Y.365 Hydrogen bonds: B:E.336, B:E.336 Water bridges: B:E.336, B:E.336 Halogen bonds: B:N.167 4QO.6: 15 residues within 4Å: Chain B: V.62, V.63, P.64, G.364, Y.365 Chain C: A.163, H.164, N.167, T.221, M.302, G.303, M.308, V.334, E.336 Ligands: IMP.5 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:A.163, B:Y.365 Hydrogen bonds: C:E.336, C:E.336 Water bridges: C:E.336, C:E.336 Halogen bonds: C:N.167 4QO.8: 15 residues within 4Å: Chain A: V.62, V.63, P.64, G.364, Y.365 Chain D: A.163, H.164, N.167, T.221, M.302, G.303, M.308, V.334, E.336 Ligands: IMP.7 7 PLIP interactions: 6 interactions with chain D, 1 interactions with chain A Hydrophobic interactions: D:A.163, A:Y.365 Hydrogen bonds: D:E.336, D:E.336 Water bridges: D:E.336, D:E.336 Halogen bonds: D:N.167

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Makowska-Grzyska, M. et al., Mycobacterium tuberculosis IMPDH in Complexes with Substrates, Products and Antitubercular Compounds. Plos One (2015)

Release Date

2015-06-17

Peptides

Inosine-5'-monophosphate dehydrogenase,Inosine-5'-monophosphate dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Inosine-5'-monophosphate dehydrogenase,Inosine-5'-monophosphate dehydrogenase

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