SMTL ID : 7w2i.1

Crystal structure of LOG (Rv1205) from Mycobacterium tuberculosis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-1-3-mer

Ligands

4 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 3 residues within 4Å: Chain A: D.120, D.124 Ligands: EDO.4 3 PLIP interactions: 2 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.120, A:D.124, H2O.4 MG.5: 4 residues within 4Å: Chain B: Q.90, E.93, D.114, D.118 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:E.93, B:D.118, H2O.10, H2O.12, H2O.12 MG.6: 2 residues within 4Å: Chain C: D.114, D.118 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:D.114, C:D.114, C:D.118, H2O.16, H2O.18 MG.8: 2 residues within 4Å: Chain D: D.114, D.118 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:D.114, D:D.114, D:D.118, H2O.23, H2O.24

4 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.2: 2 residues within 4Å: Chain A: Y.74, R.75 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.75 EDO.4: 5 residues within 4Å: Chain A: Q.96, E.99, D.124 Chain B: W.86 Ligands: MG.1 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Water bridges: B:W.86, A:E.99, A:D.124 EDO.7: 1 residues within 4Å: Chain A: D.131 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.131, A:D.131 EDO.9: 1 residues within 4Å: Chain D: W.57 No protein-ligand interaction detected (PLIP)

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 5 residues within 4Å: Chain A: I.3, D.6, R.36, W.38, P.182 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.6, A:R.36

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 2 residues within 4Å: Chain D: E.18, E.22 2 PLIP interactions: 2 interactions with chain D Water bridges: D:E.18, D:L.19

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shang, L. et al., Crystal structure of the cytokinin-producing enzyme "lonely guy" (LOG) from Mycobacterium tuberculosis. Biochem.Biophys.Res.Commun. (2022)

Release Date

2022-07-06

Peptides

Cytokinin riboside 5'-monophosphate phosphoribohydrolase: A
Cytokinin riboside 5'-monophosphate phosphoribohydrolase: BCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Cytokinin riboside 5'-monophosphate phosphoribohydrolase

Cytokinin riboside 5'-monophosphate phosphoribohydrolase