SMTL ID : 8q65.1

Mycobacterium smegmatis inosine monophosphate dehydrogenase (IMPDH) ATP-bound form

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-octamer

Ligands

4 x ATP: ADENOSINE-5'-TRIPHOSPHATE(Non-covalent)

ATP.1: 21 residues within 4Å: Chain A: S.139, I.153, T.155, N.156, R.157, D.158, R.160, T.174, I.179, I.199, E.200, K.201, P.203 Chain E: R.157, K.198, E.200 Ligands: ATP.2, MG.3, MG.4, ATP.5, MG.7 19 PLIP interactions: 15 interactions with chain A, 4 interactions with chain E Hydrogen bonds: A:S.139, A:N.156, A:N.156, A:R.157, A:D.158, A:R.160, A:T.174, A:I.179, A:E.200, A:K.201, E:E.200 Salt bridges: A:R.157, A:R.157, A:R.157, A:K.201, A:K.201, E:R.157, E:R.157, E:R.157 ATP.2: 14 residues within 4Å: Chain A: P.117, V.118, I.138, S.139, G.140, L.141, E.200, K.201, T.216, K.218, D.219 Ligands: ATP.1, MG.3, MG.4 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:V.118, A:S.139, A:S.139, A:G.140, A:D.219 Salt bridges: A:K.201, A:K.201, A:K.218 ATP.5: 20 residues within 4Å: Chain A: R.157, K.198, E.200 Chain E: I.153, T.155, N.156, R.157, D.158, T.174, L.178, I.179, I.199, E.200, K.201, P.203 Ligands: ATP.1, MG.3, ATP.6, MG.7, MG.8 16 PLIP interactions: 13 interactions with chain E, 3 interactions with chain A Hydrogen bonds: E:T.155, E:T.155, E:N.156, E:N.156, E:R.157, E:T.174, E:I.179, E:I.179, E:E.200, E:K.201 Salt bridges: E:R.157, E:K.201, E:K.201, A:R.157, A:R.157, A:R.157 ATP.6: 18 residues within 4Å: Chain E: R.108, A.111, V.114, P.117, V.118, I.138, S.139, G.140, E.200, K.201, L.214, T.216, V.217, K.218, D.219 Ligands: ATP.5, MG.7, MG.8 14 PLIP interactions: 13 interactions with chain E, 1 interactions with chain A Hydrogen bonds: E:R.108, E:V.118, E:S.139, E:S.139, E:S.139, E:G.140, E:T.216, E:D.219, A:R.160 Salt bridges: E:K.201, E:K.201, E:K.218, E:K.218, E:K.218

4 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 5 residues within 4Å: Chain A: E.200 Ligands: ATP.1, ATP.2, MG.4, ATP.5 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:E.200, A:E.200 MG.4: 4 residues within 4Å: Chain A: E.200 Ligands: ATP.1, ATP.2, MG.3 No protein-ligand interaction detected (PLIP) MG.7: 5 residues within 4Å: Chain E: E.200 Ligands: ATP.1, ATP.5, ATP.6, MG.8 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:E.200 MG.8: 6 residues within 4Å: Chain E: S.139, E.200, K.201 Ligands: ATP.5, ATP.6, MG.7 1 PLIP interactions: 1 interactions with chain E Metal complexes: E:E.200

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
C

D
D

E
E

F
F

G
G

H
H

Inosine-5'-monophosphate dehydrogenase

Related Entries With Identical Sequence