SMTL ID : 5upx.1

Crystal Structure of the Catalytic Domain of the Inosine Monophosphate Dehydrogenase from Listeria Monocytogenes in the presence of Xanthosine Monophosphate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.85 Å

Oligo State

homo-tetramer

Ligands

4 x XMP: XANTHOSINE-5'-MONOPHOSPHATE(Non-covalent)

XMP.1: 21 residues within 4Å: Chain A: A.52, M.54, N.178, G.203, S.204, I.205, C.206, T.208, D.239, G.240, G.241, M.260, L.261, G.262, S.263, Y.286, G.288, M.289, G.290, E.314, G.315 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:N.178, A:S.204, A:T.208, A:G.241, A:G.262, A:S.263, A:M.289, A:G.290, A:S.291, A:E.314 Water bridges: A:G.201, A:G.203, A:I.242, A:I.242 XMP.3: 21 residues within 4Å: Chain B: A.52, M.54, N.178, G.203, S.204, I.205, C.206, T.208, D.239, G.240, G.241, M.260, L.261, G.262, S.263, Y.286, G.288, M.289, G.290, E.314, G.315 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:N.178, B:S.204, B:T.208, B:G.241, B:G.262, B:S.263, B:M.289, B:G.290, B:S.291, B:E.314 Water bridges: B:G.201, B:G.203, B:I.242, B:I.242 XMP.5: 21 residues within 4Å: Chain C: A.52, M.54, N.178, G.203, S.204, I.205, C.206, T.208, D.239, G.240, G.241, M.260, L.261, G.262, S.263, Y.286, G.288, M.289, G.290, E.314, G.315 14 PLIP interactions: 14 interactions with chain C Hydrogen bonds: C:N.178, C:S.204, C:T.208, C:G.241, C:G.262, C:S.263, C:M.289, C:G.290, C:S.291, C:E.314 Water bridges: C:G.201, C:G.203, C:I.242, C:I.242 XMP.7: 21 residues within 4Å: Chain D: A.52, M.54, N.178, G.203, S.204, I.205, C.206, T.208, D.239, G.240, G.241, M.260, L.261, G.262, S.263, Y.286, G.288, M.289, G.290, E.314, G.315 14 PLIP interactions: 14 interactions with chain D Hydrogen bonds: D:N.178, D:S.204, D:T.208, D:G.241, D:G.262, D:S.263, D:M.289, D:G.290, D:S.291, D:E.314 Water bridges: D:G.201, D:G.203, D:I.242, D:I.242

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: P.30, S.339, G.342, Y.343 Chain C: H.152 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain A Water bridges: C:A.151, C:H.152 Hydrogen bonds: A:S.339 GOL.4: 5 residues within 4Å: Chain B: P.30, S.339, G.342, Y.343 Chain D: H.152 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain B Water bridges: D:A.151, D:H.152 Hydrogen bonds: B:S.339 GOL.6: 5 residues within 4Å: Chain B: H.152 Chain C: P.30, S.339, G.342, Y.343 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain C Water bridges: B:A.151, B:H.152 Hydrogen bonds: C:S.339 GOL.8: 5 residues within 4Å: Chain A: H.152 Chain D: P.30, S.339, G.342, Y.343 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain D Water bridges: A:A.151, A:H.152 Hydrogen bonds: D:S.339

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kim, Y. et al., Crystal Structure of the Catalytic Domain of the Inosine Monophosphate Dehydrogenase from Listeria Monocytogenes in the presence of Xanthosine Monophosphate. To Be Published

Release Date

2017-04-05

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