SMTL ID : 8qqv.1

Mycobacterium smegmatis inosine monophosphate dehydrogenase (IMPDH) ATP+IMP-bound form, extended

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-octamer

Ligands

8 x IMP: INOSINIC ACID(Non-covalent)

IMP.1: 18 residues within 4Å: Chain A: S.67, M.69, G.322, S.323, I.324, C.325, D.358, G.359, G.360, G.381, S.382, Y.405, G.407, M.408, G.409, R.427, Y.428, E.442 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:S.67, A:S.323, A:G.360, A:G.381, A:S.382, A:Y.405, A:M.408, A:G.409, A:S.410, A:Y.428, A:E.442 Water bridges: A:N.297 pi-Cation interactions: A:R.427, A:R.427 IMP.2: 20 residues within 4Å: Chain B: S.67, M.69, G.322, S.323, I.324, C.325, D.358, G.359, G.360, L.361, G.381, S.382, Y.405, G.407, M.408, G.409, R.427, Y.428, E.442, G.443 20 PLIP interactions: 20 interactions with chain B Hydrogen bonds: B:S.67, B:S.67, B:S.323, B:S.323, B:D.358, B:G.360, B:L.361, B:G.381, B:S.382, B:Y.405, B:M.408, B:G.409, B:S.410, B:R.427, B:R.427, B:Y.428, B:E.442 Water bridges: B:N.297 pi-Cation interactions: B:R.427, B:R.427 IMP.3: 18 residues within 4Å: Chain C: S.67, M.69, G.322, S.323, I.324, C.325, D.358, G.359, G.360, G.381, S.382, Y.405, G.407, M.408, G.409, S.410, Y.428, E.442 18 PLIP interactions: 18 interactions with chain C Hydrogen bonds: C:S.67, C:S.67, C:S.323, C:D.358, C:G.360, C:G.381, C:S.382, C:Y.405, C:M.408, C:G.409, C:S.410, C:Y.428, C:E.442 Water bridges: C:N.297, C:K.316, C:K.316, C:R.427 pi-Cation interactions: C:R.427 IMP.4: 22 residues within 4Å: Chain D: S.67, M.69, N.297, G.322, S.323, I.324, C.325, D.358, G.359, G.360, M.379, G.381, S.382, Y.405, G.407, M.408, G.409, S.410, R.427, Y.428, E.442, G.443 18 PLIP interactions: 18 interactions with chain D Hydrogen bonds: D:S.67, D:N.297, D:S.323, D:D.358, D:G.360, D:G.381, D:S.382, D:S.382, D:Y.405, D:M.408, D:G.409, D:S.410, D:R.427, D:R.427, D:Y.428, D:E.442 pi-Cation interactions: D:R.427, D:R.427 IMP.5: 20 residues within 4Å: Chain E: S.67, M.69, N.297, G.322, S.323, I.324, C.325, D.358, G.359, G.360, L.361, M.379, G.381, S.382, Y.405, G.407, M.408, G.409, Y.428, E.442 16 PLIP interactions: 16 interactions with chain E Hydrogen bonds: E:S.67, E:N.297, E:S.323, E:S.323, E:I.324, E:D.358, E:G.360, E:L.361, E:L.361, E:S.382, E:M.408, E:G.409, E:S.410, E:Y.428, E:E.442 pi-Cation interactions: E:R.427 IMP.6: 19 residues within 4Å: Chain F: S.67, M.69, G.322, S.323, I.324, C.325, D.358, G.359, G.360, L.361, G.381, S.382, Y.405, G.407, M.408, G.409, S.410, Y.428, E.442 18 PLIP interactions: 18 interactions with chain F Hydrogen bonds: F:S.67, F:S.67, F:S.323, F:D.358, F:G.360, F:L.361, F:G.381, F:S.382, F:M.408, F:G.409, F:S.410, F:R.427, F:Y.428, F:E.442 Water bridges: F:G.320, F:G.322 pi-Cation interactions: F:R.427, F:R.427 IMP.7: 19 residues within 4Å: Chain G: S.67, M.69, G.322, S.323, I.324, C.325, D.358, G.359, G.360, G.381, S.382, Y.405, G.407, M.408, G.409, S.410, Y.428, E.442, G.443 15 PLIP interactions: 15 interactions with chain G Hydrogen bonds: G:S.67, G:S.67, G:S.323, G:D.358, G:G.360, G:G.381, G:S.382, G:M.408, G:G.409, G:Y.428, G:E.442 Water bridges: G:G.322, G:G.322, G:R.427 pi-Cation interactions: G:R.427 IMP.8: 20 residues within 4Å: Chain H: S.67, M.69, G.322, S.323, I.324, C.325, D.358, G.359, G.360, L.361, G.381, S.382, Y.405, G.407, M.408, G.409, R.427, Y.428, E.442, G.443 16 PLIP interactions: 16 interactions with chain H Hydrogen bonds: H:S.67, H:S.323, H:S.323, H:G.360, H:G.381, H:S.382, H:S.382, H:M.408, H:G.409, H:R.427, H:R.427, H:Y.428, H:E.442 Water bridges: H:N.297 pi-Cation interactions: H:R.427, H:R.427

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bulvas, O. et al., Deciphering the allosteric regulation of mycobacterial inosine-5'-monophosphate dehydrogenase. Nat Commun (2024)

Release Date

2024-08-14

Peptides

Inosine-5'-monophosphate dehydrogenase: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
D

D
C

E
E

F
F

G
G

H
H

Inosine-5'-monophosphate dehydrogenase

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