SMTL ID : 8ryb.1

CryoEM structure of M. smegmatis GMP reductase in complex with GMP at pH 7.8, extended conformation.

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-octamer

Ligands

16 x 5GP: GUANOSINE-5'-MONOPHOSPHATE(Non-covalent)

5GP.1: 17 residues within 4Å: Chain A: A.51, M.53, N.275, P.299, G.300, A.301, C.303, D.336, G.337, G.338, R.340, G.359, S.360, G.386, M.387, A.388, R.391 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:N.275, A:A.301, A:D.336, A:G.337, A:G.338, A:G.359, A:S.360, A:S.360, A:M.387, A:A.388, A:R.391 Salt bridges: A:R.340, A:E.413 5GP.2: 8 residues within 4Å: Chain A: R.59, R.60, V.101, T.102, L.115, K.118 Chain H: F.147, R.149 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain H Hydrogen bonds: A:T.102, A:T.102, A:T.102, H:R.149 Salt bridges: A:R.60, A:K.118 5GP.3: 17 residues within 4Å: Chain B: A.51, M.53, N.275, P.299, G.300, A.301, C.303, D.336, G.337, G.338, R.340, G.359, S.360, G.386, M.387, A.388, R.391 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:N.275, B:A.301, B:D.336, B:G.337, B:G.338, B:G.359, B:S.360, B:S.360, B:M.387, B:A.388, B:R.391 Salt bridges: B:R.340, B:E.413 5GP.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 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain G Hydrogen bonds: B:T.102, B:T.102, B:T.102, G:R.149 Salt bridges: B:R.60, B:K.118 5GP.5: 17 residues within 4Å: Chain C: A.51, M.53, N.275, P.299, G.300, A.301, C.303, D.336, G.337, G.338, R.340, G.359, S.360, G.386, M.387, A.388, R.391 13 PLIP interactions: 13 interactions with chain C Hydrogen bonds: C:N.275, C:A.301, C:D.336, C:G.337, C:G.338, C:G.359, C:S.360, C:S.360, C:M.387, C:A.388, C:R.391 Salt bridges: C:R.340, C:E.413 5GP.6: 8 residues within 4Å: Chain C: R.59, R.60, V.101, T.102, L.115, K.118 Chain F: F.147, R.149 6 PLIP interactions: 1 interactions with chain F, 5 interactions with chain C Hydrogen bonds: F:R.149, C:T.102, C:T.102, C:T.102 Salt bridges: C:R.60, C:K.118 5GP.7: 17 residues within 4Å: Chain D: A.51, M.53, N.275, P.299, G.300, A.301, C.303, D.336, G.337, G.338, R.340, G.359, S.360, G.386, M.387, A.388, R.391 13 PLIP interactions: 13 interactions with chain D Hydrogen bonds: D:N.275, D:A.301, D:D.336, D:G.337, D:G.338, D:G.359, D:S.360, D:S.360, D:M.387, D:A.388, D:R.391 Salt bridges: D:R.340, D:E.413 5GP.8: 7 residues within 4Å: Chain D: R.59, R.60, V.101, T.102, L.115, K.118 Chain E: R.149 6 PLIP interactions: 1 interactions with chain E, 5 interactions with chain D Hydrogen bonds: E:R.149, D:T.102, D:T.102, D:T.102 Salt bridges: D:R.60, D:K.118 5GP.9: 17 residues within 4Å: Chain E: A.51, M.53, N.275, P.299, G.300, A.301, C.303, D.336, G.337, G.338, R.340, G.359, S.360, G.386, M.387, A.388, R.391 13 PLIP interactions: 13 interactions with chain E Hydrogen bonds: E:N.275, E:A.301, E:D.336, E:G.337, E:G.338, E:G.359, E:S.360, E:S.360, E:M.387, E:A.388, E:R.391 Salt bridges: E:R.340, E:E.413 5GP.10: 8 residues within 4Å: Chain D: F.147, R.149 Chain E: R.59, R.60, V.101, T.102, L.115, K.118 6 PLIP interactions: 5 interactions with chain E, 1 interactions with chain D Hydrogen bonds: E:T.102, E:T.102, E:T.102, D:R.149 Salt bridges: E:R.60, E:K.118 5GP.11: 17 residues within 4Å: Chain F: A.51, M.53, N.275, P.299, G.300, A.301, C.303, D.336, G.337, G.338, R.340, G.359, S.360, G.386, M.387, A.388, R.391 13 PLIP interactions: 13 interactions with chain F Hydrogen bonds: F:N.275, F:A.301, F:D.336, F:G.337, F:G.338, F:G.359, F:S.360, F:S.360, F:M.387, F:A.388, F:R.391 Salt bridges: F:R.340, F:E.413 5GP.12: 8 residues within 4Å: Chain C: F.147, R.149 Chain F: R.59, R.60, V.101, T.102, L.115, K.118 6 PLIP interactions: 5 interactions with chain F, 1 interactions with chain C Hydrogen bonds: F:T.102, F:T.102, F:T.102, C:R.149 Salt bridges: F:R.60, F:K.118 5GP.13: 17 residues within 4Å: Chain G: A.51, M.53, N.275, P.299, G.300, A.301, C.303, D.336, G.337, G.338, R.340, G.359, S.360, G.386, M.387, A.388, R.391 13 PLIP interactions: 13 interactions with chain G Hydrogen bonds: G:N.275, G:A.301, G:D.336, G:G.337, G:G.338, G:G.359, G:S.360, G:S.360, G:M.387, G:A.388, G:R.391 Salt bridges: G:R.340, G:E.413 5GP.14: 8 residues within 4Å: Chain B: F.147, R.149 Chain G: R.59, R.60, V.101, T.102, L.115, K.118 6 PLIP interactions: 5 interactions with chain G, 1 interactions with chain B Hydrogen bonds: G:T.102, G:T.102, G:T.102, B:R.149 Salt bridges: G:R.60, G:K.118 5GP.15: 17 residues within 4Å: Chain H: A.51, M.53, N.275, P.299, G.300, A.301, C.303, D.336, G.337, G.338, R.340, G.359, S.360, G.386, M.387, A.388, R.391 13 PLIP interactions: 13 interactions with chain H Hydrogen bonds: H:N.275, H:A.301, H:D.336, H:G.337, H:G.338, H:G.359, H:S.360, H:S.360, H:M.387, H:A.388, H:R.391 Salt bridges: H:R.340, H:E.413 5GP.16: 8 residues within 4Å: Chain A: F.147, R.149 Chain H: R.59, R.60, 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:R.149 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

2025-08-20

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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