SMTL ID : 2v2v.2 (1 other biounit)

IspE in complex with ligand

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 7 residues within 4Å: Chain A: P.91, P.92, G.93, A.94, G.98, G.99 Ligands: GOL.5 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:G.93, A:A.94, A:G.98, A:G.99 Water bridges: A:G.95, A:L.96, A:L.96, A:G.97, A:S.100 SO4.2: 10 residues within 4Å: Chain A: K.12, G.95, L.96, G.97, D.133, T.174, G.240, S.241, G.242 Ligands: GOL.4 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:G.97, A:T.174, A:S.241 Water bridges: A:L.96 Salt bridges: A:K.12 SO4.3: 3 residues within 4Å: Chain A: R.216, Y.226, R.227 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:R.216, A:R.227

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 13 residues within 4Å: Chain A: K.12, N.14, L.17, I.30, Y.34, D.133, K.148, Y.178, L.211, G.240, S.241 Ligands: SO4.2, V12.9 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.12, A:N.14, A:K.148 GOL.5: 7 residues within 4Å: Chain A: I.58, N.63, L.64, K.88, G.99, N.102 Ligands: SO4.1 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.63, A:L.64, A:N.102 Water bridges: A:K.88, A:K.88

3 x BR: BROMIDE ION(Non-covalent)

BR.6: 4 residues within 4Å: Chain A: V.170, Y.219, P.220, E.221 Ligand excluded by PLIP BR.7: 4 residues within 4Å: Chain A: E.208, N.209, F.237, V.238 Ligand excluded by PLIP BR.8: 2 residues within 4Å: Chain A: M.4, R.46 Ligand excluded by PLIP

1 x V12: 5'-[(1H-BENZIMIDAZOL-2-YLACETYL)AMINO]-5'-DEOXYCYTIDINE(Non-covalent)

V12.9: 12 residues within 4Å: Chain A: G.26, Y.27, H.28, I.30, K.148, S.173, T.174, G.175, R.176, Y.178, S.179 Ligands: GOL.4 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:R.176 Hydrogen bonds: A:G.26, A:H.28, A:K.148, A:S.173, A:G.175 pi-Stacking: A:Y.27, A:Y.178

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Crane, C.M. et al., Synthesis and Characterization of Cytidine Derivatives that Inhibit the Kinase Ispe of the Non-Mevalonate Pathway for Isoprenoid Biosynthesis. Chemmedchem (2008)

Release Date

2007-06-19

Peptides

4-DIPHOSPHOCYTIDYL-2C-METHYL-D-ERYTHRITOL KINASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

4-DIPHOSPHOCYTIDYL-2C-METHYL-D-ERYTHRITOL KINASE

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