SMTL ID : 1ld8.1

Co-crystal structure of Human Farnesyltransferase with farnesyldiphosphate and inhibitor compound 49

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

hetero-1-1-mer

Ligands

1 x GLC- FRU: beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose(Non-covalent)

GLC-FRU.1: 12 residues within 4Å: Chain A: Y.241, G.282, Q.285, D.286 Chain B: A.230, R.231, Q.233, N.234, W.235, G.237, N.269, S.272 7 PLIP interactions: 3 interactions with chain B, 4 interactions with chain A Hydrogen bonds: B:A.230, B:N.269, B:N.269, B:S.272, A:Q.285, A:D.286, A:Y.241, A:G.282, A:Q.285, B:Q.233 Water bridges: A:D.286, A:D.286, B:W.235, B:G.244

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

ACY.2: 5 residues within 4Å: Chain A: K.164, N.165, Y.166, H.201 Ligands: U49.6 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:K.164 Water bridges: A:K.164, A:Y.166 Salt bridges: A:H.201 ACY.3: 4 residues within 4Å: Chain A: Y.166, Q.167 Chain B: R.202 Ligands: U49.6 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Q.167 Water bridges: A:Q.167, B:R.202

1 x ZN: ZINC ION(Non-covalent)

ZN.4: 5 residues within 4Å: Chain B: D.297, C.299, Y.361, H.362 Ligands: U49.6 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.297, B:D.297, B:C.299, B:H.362

1 x FPP: FARNESYL DIPHOSPHATE(Non-covalent)

FPP.5: 16 residues within 4Å: Chain A: K.164, Y.166, Y.200 Chain B: W.102, R.202, Y.205, C.206, H.248, G.250, Y.251, C.254, R.291, K.294, Y.300, W.303 Ligands: U49.6 24 PLIP interactions: 21 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:W.102, B:R.202, B:Y.205, B:Y.251, B:W.303, B:W.303, A:Y.200 Water bridges: B:G.290, B:R.291, B:R.291, B:R.291, B:K.294, B:K.294, B:K.294, B:K.294, B:L.295, B:Y.300, A:K.164 Salt bridges: B:H.248, B:R.291, B:R.291, B:K.294, B:K.294, A:K.164

1 x U49: (20S)-19,20,21,22-TETRAHYDRO-19-OXO-5H-18,20-ETHANO-12,14-ETHENO-6,10-METHENO-18H-BENZ[D]IMIDAZO[4,3-K][1,6,9,12]OXATRI AZA-CYCLOOCTADECOSINE-9-CARBONITRILE(Non-covalent)

U49.6: 15 residues within 4Å: Chain A: Y.166 Chain B: L.96, S.99, W.102, W.106, R.202, D.297, C.299, Y.300, Y.361, H.362 Ligands: ACY.2, ACY.3, ZN.4, FPP.5 7 PLIP interactions: 1 interactions with chain A, 6 interactions with chain B Hydrophobic interactions: A:Y.166, B:L.96, B:Y.361 Hydrogen bonds: B:R.202 pi-Stacking: B:W.102, B:W.102, B:W.106

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bell, I.M. et al., 3-Aminopyrrolidinone farnesyltransferase inhibitors: design of macrocyclic compounds with improved pharmacokinetics and excellent cell potency. J.Med.Chem. (2002)

Release Date

2002-06-19

Peptides

protein farnesyltransferase alpha subunit: A
protein farnesyltransferase beta subunit: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

protein farnesyltransferase alpha subunit

protein farnesyltransferase beta subunit

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