SMTL ID : 2zis.1

Crystal Structure of rat protein farnesyltransferase complexed with a bezoruran inhibitor and FPP

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

hetero-1-1-mer

Ligands

2 x ACY: ACETIC ACID(Non-functional Binders)

ACY.1: 4 residues within 4Å: Chain A: H.170, R.173, Q.204 Chain B: E.201 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Water bridges: A:R.173, A:Q.204, B:V.202 Salt bridges: A:H.170, A:R.173 Hydrophobic interactions: B:E.201 ACY.5: 5 residues within 4Å: Chain B: Y.84, L.92, T.93, Y.96, F.363 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:Y.84, B:L.92, B:Y.96, B:F.363 Hydrogen bonds: B:T.93 Water bridges: B:Q.91

1 x ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain B: D.300, C.302, Y.364, H.365 Ligands: NH8.4 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.300, B:D.300, B:C.302, B:H.365

1 x FPP: FARNESYL DIPHOSPHATE(Non-covalent)

FPP.3: 16 residues within 4Å: Chain A: K.164, Y.166, H.201 Chain B: W.105, R.205, Y.208, H.251, G.253, Y.254, C.257, R.294, K.297, Y.303, W.306, Y.364 Ligands: NH8.4 17 PLIP interactions: 16 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:W.105, B:R.205, B:Y.208, B:Y.254, B:W.306, B:W.306 Hydrogen bonds: B:Y.303 Water bridges: B:G.293, B:R.294, B:R.294, B:K.297 Salt bridges: B:H.251, B:R.294, B:R.294, B:K.297, B:K.297, A:K.164

1 x NH8: 3-{2-[(S)-(4-cyanophenyl)(hydroxy)(1-methyl-1H-imidazol-5-yl)methyl]-5-nitro-1-benzofuran-7-yl}benzonitrile(Non-covalent)

NH8.4: 15 residues within 4Å: Chain A: Y.166 Chain B: Y.96, L.99, S.102, W.105, W.109, R.205, D.300, C.302, Y.303, D.362, Y.364, H.365 Ligands: ZN.2, FPP.3 10 PLIP interactions: 9 interactions with chain B, 1 interactions with chain A Hydrophobic interactions: B:L.99, B:W.109, B:Y.364, B:Y.364, A:Y.166 Hydrogen bonds: B:R.205 pi-Stacking: B:W.105, B:W.109, B:Y.364, B:Y.364

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 9 residues within 4Å: Chain A: Q.80, Y.100, F.103, R.104, L.107, N.130 Chain B: P.147, G.148, Q.149 5 PLIP interactions: 1 interactions with chain B, 4 interactions with chain A Water bridges: B:G.148 Hydrogen bonds: A:Q.80, A:R.104, A:N.130, A:N.130 GOL.7: 7 residues within 4Å: Chain B: W.331, F.379, G.380, P.399, T.400, P.402, P.408 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.380, B:T.400 GOL.8: 3 residues within 4Å: Chain B: D.40, S.42, E.44 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.40, B:S.42, B:E.44

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Asoh, K. et al., Synthesis and structure-activity relationships of novel benzofuran farnesyltransferase inhibitors. Bioorg.Med.Chem.Lett. (2009)

Release Date

2009-02-24

Peptides

Protein farnesyltransferase subunit alpha: A
Protein farnesyltransferase subunit beta: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Protein farnesyltransferase subunit alpha

Protein farnesyltransferase subunit beta

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