SMTL ID : 9av0.1

Crystal structure of S. aureus GuaB dCBS with inhibitor GNE2011

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-tetramer

Ligands

4 x IMP: INOSINIC ACID(Non-covalent)

IMP.1: 23 residues within 4Å: Chain A: A.64, M.66, N.168, K.187, G.193, S.194, I.195, C.196, T.198, D.229, G.230, G.231, M.250, L.251, G.252, S.253, Y.276, G.278, M.279, G.280, E.306, G.307 Ligands: 01.2 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:N.168, A:S.194, A:D.229, A:D.229, A:G.231, A:I.232, A:G.252, A:S.253, A:M.279, A:G.280, A:E.306 Water bridges: A:K.187, A:L.254 IMP.3: 23 residues within 4Å: Chain B: A.64, M.66, N.168, K.187, G.193, S.194, I.195, C.196, T.198, D.229, G.230, G.231, M.250, L.251, G.252, S.253, Y.276, G.278, M.279, G.280, E.306, G.307 Ligands: 01.4 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:N.168, B:S.194, B:D.229, B:D.229, B:G.231, B:I.232, B:G.252, B:S.253, B:M.279, B:G.280, B:E.306 Water bridges: B:K.187, B:L.254 IMP.5: 23 residues within 4Å: Chain C: A.64, M.66, N.168, K.187, G.193, S.194, I.195, C.196, T.198, D.229, G.230, G.231, M.250, L.251, G.252, S.253, Y.276, G.278, M.279, G.280, E.306, G.307 Ligands: 01.6 13 PLIP interactions: 13 interactions with chain C Hydrogen bonds: C:N.168, C:S.194, C:D.229, C:D.229, C:G.231, C:I.232, C:G.252, C:S.253, C:M.279, C:G.280, C:E.306 Water bridges: C:K.187, C:L.254 IMP.7: 23 residues within 4Å: Chain D: A.64, M.66, N.168, K.187, G.193, S.194, I.195, C.196, T.198, D.229, G.230, G.231, M.250, L.251, G.252, S.253, Y.276, G.278, M.279, G.280, E.306, G.307 Ligands: 01.8 13 PLIP interactions: 13 interactions with chain D Hydrogen bonds: D:N.168, D:S.194, D:D.229, D:D.229, D:G.231, D:I.232, D:G.252, D:S.253, D:M.279, D:G.280, D:E.306 Water bridges: D:K.187, D:L.254

4 x 01: 9-{(1R)-1-[(5P)-5-(4-chloro-1H-imidazol-2-yl)pyridin-3-yl]ethoxy}-1,4-dihydro-2H-pyrano[3,4-c]quinoline

01.2: 18 residues within 4Å: Chain A: A.141, H.142, N.168, G.189, I.190, G.191, T.198, M.279, G.280, M.285, F.303, V.304, E.306 Chain D: P.42, A.331, G.334, Y.335 Ligands: IMP.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:A.141, A:A.141, A:E.306 Hydrogen bonds: A:G.191, A:E.306 Water bridges: A:N.168 pi-Stacking: A:F.303 01.4: 18 residues within 4Å: Chain B: A.141, H.142, N.168, G.189, I.190, G.191, T.198, M.279, G.280, M.285, F.303, V.304, E.306 Chain C: P.42, A.331, G.334, Y.335 Ligands: IMP.3 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:A.141, B:A.141, B:E.306 Hydrogen bonds: B:G.191, B:E.306 Water bridges: B:N.168 pi-Stacking: B:F.303 01.6: 18 residues within 4Å: Chain A: P.42, A.331, G.334, Y.335 Chain C: A.141, H.142, N.168, G.189, I.190, G.191, T.198, M.279, G.280, M.285, F.303, V.304, E.306 Ligands: IMP.5 7 PLIP interactions: 7 interactions with chain C Hydrophobic interactions: C:A.141, C:A.141, C:E.306 Hydrogen bonds: C:G.191, C:E.306 Water bridges: C:N.168 pi-Stacking: C:F.303 01.8: 18 residues within 4Å: Chain B: P.42, A.331, G.334, Y.335 Chain D: A.141, H.142, N.168, G.189, I.190, G.191, T.198, M.279, G.280, M.285, F.303, V.304, E.306 Ligands: IMP.7 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:A.141, D:A.141, D:E.306 Hydrogen bonds: D:G.191, D:E.306 Water bridges: D:N.168 pi-Stacking: D:F.303

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kofoed, E.M. et al., Discovery of GuaB inhibitors with efficacy against Acinetobacter baumannii infection. Mbio (2024)

Release Date

2024-11-27

Peptides

Inosine-5'-monophosphate dehydrogenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Inosine-5'-monophosphate dehydrogenase

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