SMTL ID : 9hfz.1

Crystal structure of M. smegmatis GMP reductase in complex with IMP.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-octamer

Ligands

16 x IMP: INOSINIC ACID(Non-covalent)

IMP.1: 16 residues within 4Å: Chain A: A.51, M.53, N.275, T.305, D.336, G.337, G.338, R.340, M.357, G.359, S.360, G.386, M.387, A.388, R.391, E.413 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:N.275, A:D.336, A:G.338, A:V.339, A:G.359, A:S.360, A:S.360, A:M.387, A:A.388, A:R.391, A:E.413 Salt bridges: A:R.340 IMP.2: 7 residues within 4Å: Chain A: R.60, V.101, T.102, L.115, K.118 Chain H: F.147, R.149 6 PLIP interactions: 1 interactions with chain H, 5 interactions with chain A Hydrogen bonds: H:F.147, A:T.102, A:T.102, A:T.102 Salt bridges: A:R.60, A:K.118 IMP.3: 16 residues within 4Å: Chain B: A.51, M.53, N.275, D.336, G.337, G.338, V.339, M.357, I.358, G.359, S.360, G.386, M.387, A.388, R.391, E.413 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:N.275, B:G.338, B:V.339, B:G.359, B:S.360, B:S.360, B:M.387, B:A.388, B:R.391, B:E.413 IMP.4: 8 residues within 4Å: Chain B: R.59, R.60, V.101, T.102, L.115, K.118 Chain G: F.147, R.149 5 PLIP interactions: 1 interactions with chain G, 4 interactions with chain B Hydrogen bonds: G:F.147, B:T.102, B:T.102 Salt bridges: B:R.60, B:K.118 IMP.5: 17 residues within 4Å: Chain C: A.51, M.53, N.275, D.336, G.337, G.338, V.339, R.340, M.357, I.358, G.359, S.360, G.386, M.387, A.388, R.391, E.413 11 PLIP interactions: 11 interactions with chain C Hydrogen bonds: C:N.275, C:D.336, C:G.338, C:V.339, C:G.359, C:S.360, C:S.360, C:M.387, C:A.388, C:E.413 Salt bridges: C:R.340 IMP.6: 6 residues within 4Å: Chain C: R.60, V.101, T.102, L.115, K.118 Chain F: F.147 6 PLIP interactions: 5 interactions with chain C, 1 interactions with chain F Hydrogen bonds: C:T.102, C:T.102, C:K.118, F:F.147 Salt bridges: C:R.60, C:K.118 IMP.7: 17 residues within 4Å: Chain D: A.51, M.53, N.275, D.336, G.337, G.338, V.339, R.340, M.357, I.358, G.359, S.360, G.386, M.387, A.388, R.391, E.413 12 PLIP interactions: 12 interactions with chain D Hydrogen bonds: D:N.275, D:D.336, D:G.338, D:V.339, D:G.359, D:S.360, D:S.360, D:M.387, D:A.388, D:R.391, D:E.413 Salt bridges: D:R.340 IMP.8: 7 residues within 4Å: Chain D: R.60, V.101, T.102, L.115, K.118 Chain E: F.147, R.149 6 PLIP interactions: 5 interactions with chain D, 1 interactions with chain E Hydrogen bonds: D:T.102, D:T.102, D:T.102, E:F.147 Salt bridges: D:R.60, D:K.118 IMP.9: 16 residues within 4Å: Chain E: A.51, M.53, N.275, D.336, G.337, G.338, R.340, M.357, I.358, G.359, S.360, G.386, M.387, A.388, R.391, E.413 11 PLIP interactions: 11 interactions with chain E Hydrogen bonds: E:N.275, E:D.336, E:G.338, E:G.359, E:S.360, E:S.360, E:S.360, E:M.387, E:A.388, E:E.413 Salt bridges: E:R.340 IMP.10: 8 residues within 4Å: Chain D: F.147, R.149 Chain E: R.60, V.101, T.102, L.115, K.118, P.369 5 PLIP interactions: 4 interactions with chain E, 1 interactions with chain D Hydrogen bonds: E:T.102, E:T.102, D:F.147 Salt bridges: E:R.60, E:K.118 IMP.11: 16 residues within 4Å: Chain F: A.51, M.53, N.275, K.294, T.305, D.336, G.337, G.338, R.340, G.359, S.360, G.386, M.387, A.388, R.391, E.413 11 PLIP interactions: 11 interactions with chain F Hydrogen bonds: F:N.275, F:K.294, F:K.294, F:G.338, F:G.359, F:S.360, F:S.360, F:M.387, F:A.388, F:E.413 Salt bridges: F:R.340 IMP.12: 8 residues within 4Å: Chain C: F.147, R.149 Chain F: R.60, V.101, T.102, L.115, K.118, P.369 6 PLIP interactions: 5 interactions with chain F, 1 interactions with chain C Hydrogen bonds: F:T.102, F:T.102, F:K.118, C:F.147 Salt bridges: F:R.60, F:K.118 IMP.13: 17 residues within 4Å: Chain G: A.51, M.53, N.275, K.294, T.305, D.336, G.337, G.338, V.339, R.340, I.358, G.359, S.360, G.386, M.387, A.388, R.391 11 PLIP interactions: 11 interactions with chain G Hydrogen bonds: G:N.275, G:K.294, G:K.294, G:G.338, G:V.339, G:G.359, G:S.360, G:S.360, G:M.387, G:A.388 Salt bridges: G:R.340 IMP.14: 9 residues within 4Å: Chain B: F.147, R.149 Chain G: R.60, P.100, V.101, T.102, L.115, K.118, P.369 5 PLIP interactions: 4 interactions with chain G, 1 interactions with chain B Hydrogen bonds: G:T.102, G:T.102, G:K.118, B:F.147 Salt bridges: G:R.60 IMP.15: 15 residues within 4Å: Chain H: A.51, M.53, N.275, D.336, G.337, G.338, R.340, M.357, G.359, S.360, G.386, M.387, A.388, R.391, E.413 11 PLIP interactions: 11 interactions with chain H Hydrogen bonds: H:N.275, H:G.338, H:G.359, H:S.360, H:S.360, H:S.360, H:M.387, H:A.388, H:E.413, H:E.413 Salt bridges: H:R.340 IMP.16: 8 residues within 4Å: Chain A: F.147 Chain H: R.59, R.60, P.100, V.101, T.102, L.115, K.118 6 PLIP interactions: 5 interactions with chain H, 1 interactions with chain A Hydrogen bonds: H:T.102, H:T.102, H:T.102, A:F.147 Salt bridges: H:R.60, H:K.118

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dolezal, M. et al., Structural basis for allosteric regulation of mycobacterial guanosine 5'-monophosphate reductase with ATP and GTP. To Be Published

Release Date

2025-08-27

Peptides

GMP reductase: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

GMP reductase

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