SMTL ID : 5ou2.1

M. thermoresistible IMPDH in complex with IMP and Compound 2 (NMR744)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.45 Å

Oligo State

homo-tetramer

Ligands

4 x IMP: INOSINIC ACID(Non-covalent)

IMP.1: 23 residues within 4Å: Chain A: S.68, M.70, N.173, G.198, S.199, I.200, C.201, T.203, D.234, G.235, G.236, M.255, L.256, G.257, S.258, Y.281, G.283, M.284, G.285, S.286, E.318, G.319 Ligands: 36Y.3 19 PLIP interactions: 19 interactions with chain A Hydrogen bonds: A:S.68, A:N.173, A:S.199, A:D.234, A:G.236, A:G.257, A:S.258, A:Y.281, A:M.284, A:G.285 Water bridges: A:G.196, A:G.198, A:S.199, A:T.203, A:T.203, A:L.237, A:L.237, A:L.237, A:L.237 IMP.4: 23 residues within 4Å: Chain B: S.68, M.70, N.173, G.198, S.199, I.200, C.201, T.203, D.234, G.235, G.236, M.255, L.256, G.257, S.258, Y.281, G.283, M.284, G.285, S.286, E.318, G.319 Ligands: 36Y.6 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:S.68, B:N.173, B:S.199, B:D.234, B:G.236, B:G.257, B:S.258, B:Y.281, B:M.284, B:G.285 Water bridges: B:G.196, B:G.198, B:S.199, B:T.203, B:T.203, B:L.237, B:L.237, B:L.237, B:L.237 IMP.7: 23 residues within 4Å: Chain C: S.68, M.70, N.173, G.198, S.199, I.200, C.201, T.203, D.234, G.235, G.236, M.255, L.256, G.257, S.258, Y.281, G.283, M.284, G.285, S.286, E.318, G.319 Ligands: 36Y.9 19 PLIP interactions: 19 interactions with chain C Hydrogen bonds: C:S.68, C:N.173, C:S.199, C:D.234, C:G.236, C:G.257, C:S.258, C:Y.281, C:M.284, C:G.285 Water bridges: C:G.196, C:G.198, C:S.199, C:T.203, C:T.203, C:L.237, C:L.237, C:L.237, C:L.237 IMP.10: 23 residues within 4Å: Chain D: S.68, M.70, N.173, G.198, S.199, I.200, C.201, T.203, D.234, G.235, G.236, M.255, L.256, G.257, S.258, Y.281, G.283, M.284, G.285, S.286, E.318, G.319 Ligands: 36Y.12 19 PLIP interactions: 19 interactions with chain D Hydrogen bonds: D:S.68, D:N.173, D:S.199, D:D.234, D:G.236, D:G.257, D:S.258, D:Y.281, D:M.284, D:G.285 Water bridges: D:G.196, D:G.198, D:S.199, D:T.203, D:T.203, D:L.237, D:L.237, D:L.237, D:L.237

8 x 36Y: 4-(4-bromophenyl)-1H-imidazole(Non-covalent)

36Y.2: 10 residues within 4Å: Chain A: H.146, N.149, E.318 Chain C: S.42, V.44, L.45, P.46, A.343, G.346, Y.347 7 PLIP interactions: 4 interactions with chain A, 3 interactions with chain C Hydrophobic interactions: A:H.146, C:L.45, C:P.46 Hydrogen bonds: A:E.318 Water bridges: A:E.318 Halogen bonds: A:N.149, C:S.42 36Y.3: 7 residues within 4Å: Chain A: A.145, N.173, G.194, G.285, E.318 Chain C: Y.347 Ligands: IMP.1 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:A.145, A:E.318 Hydrogen bonds: A:N.173, A:G.194 Water bridges: A:G.196, A:G.196 36Y.5: 10 residues within 4Å: Chain B: H.146, N.149, E.318 Chain D: S.42, V.44, L.45, P.46, A.343, G.346, Y.347 7 PLIP interactions: 3 interactions with chain D, 4 interactions with chain B Hydrophobic interactions: D:L.45, D:P.46, B:H.146 Halogen bonds: D:S.42, B:N.149 Hydrogen bonds: B:E.318 Water bridges: B:E.318 36Y.6: 7 residues within 4Å: Chain B: A.145, N.173, G.194, G.285, E.318 Chain D: Y.347 Ligands: IMP.4 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:A.145, B:E.318 Hydrogen bonds: B:N.173, B:G.194 Water bridges: B:G.196, B:G.196 36Y.8: 10 residues within 4Å: Chain B: S.42, V.44, L.45, P.46, A.343, G.346, Y.347 Chain C: H.146, N.149, E.318 7 PLIP interactions: 4 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:H.146, B:L.45, B:P.46 Hydrogen bonds: C:E.318 Water bridges: C:E.318 Halogen bonds: C:N.149, B:S.42 36Y.9: 7 residues within 4Å: Chain B: Y.347 Chain C: A.145, N.173, G.194, G.285, E.318 Ligands: IMP.7 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:A.145, C:E.318 Hydrogen bonds: C:N.173, C:G.194 Water bridges: C:G.196, C:G.196 36Y.11: 10 residues within 4Å: Chain A: S.42, V.44, L.45, P.46, A.343, G.346, Y.347 Chain D: H.146, N.149, E.318 7 PLIP interactions: 3 interactions with chain A, 4 interactions with chain D Hydrophobic interactions: A:L.45, A:P.46, D:H.146 Halogen bonds: A:S.42, D:N.149 Hydrogen bonds: D:E.318 Water bridges: D:E.318 36Y.12: 7 residues within 4Å: Chain A: Y.347 Chain D: A.145, N.173, G.194, G.285, E.318 Ligands: IMP.10 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:A.145, D:E.318 Hydrogen bonds: D:N.173, D:G.194 Water bridges: D:G.196, D:G.196

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Trapero, A. et al., Fragment-Based Approach to Targeting Inosine-5'-monophosphate Dehydrogenase (IMPDH) from Mycobacterium tuberculosis. J. Med. Chem. (2018)

Release Date

2018-03-28

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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