SMTL ID : 2vf3.2 (1 other biounit)

Aquifex aeolicus IspE in complex with ligand

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

monomer

Ligands

1 x GVS: ethyl {3-[4-amino-5-{3-[(cyclopropylsulfonyl)amino]prop-1-yn-1-yl}-2-oxopyrimidin-1(2H)-yl]oxetan-3-yl}acetate

GVS.1: 15 residues within 4Å: Chain A: K.12, N.14, L.17, Y.27, H.28, I.30, Y.34, A.132, D.133, K.148, T.174, G.175, Y.178, G.240, S.241 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.27, A:Y.27, A:A.132, A:Y.178 Hydrogen bonds: A:K.12, A:N.14, A:H.28, A:H.28, A:Y.34, A:Y.34, A:Y.178 pi-Stacking: A:Y.178

1 x POP: PYROPHOSPHATE 2-(Non-covalent)

POP.2: 8 residues within 4Å: Chain A: P.92, G.93, A.94, G.95, L.96, G.97, G.98, G.99 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:P.91, A:G.93, A:A.94, A:G.95, A:G.97, A:G.98, A:G.99, A:G.242 Water bridges: A:L.96, A:L.96

3 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 1 residues within 4Å: Chain A: R.216 Ligand excluded by PLIP CL.4: 2 residues within 4Å: Chain A: M.4, R.46 Ligand excluded by PLIP CL.5: 2 residues within 4Å: Chain A: K.195, E.206 Ligand excluded by PLIP

1 x BR: BROMIDE ION(Non-covalent)

BR.6: 4 residues within 4Å: Chain A: E.208, N.209, F.237, V.238 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hirsch, A.K. et al., Inhibitors of the Kinase Ispe: Structure-Activity Relationships and Co-Crystal Structure Analysis. Org.Biomol.Chem. (2008)

Release Date

2008-11-25

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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