1LD8

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


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.202
  • R-Value Work: 0.184

Literature

Macromolecules
Sequence Display for 1LD8

Classification: TRANSFERASE

Total Structure Weight: 95032.86

Macromolecule Entities
Molecule Chains Length Organism Details
protein farnesyltransferase alpha subunit A 382 Homo sapiens EC#: 2.3.1.n3 IUBMB 2.5.1.58 IUBMB 2.5.1.59 IUBMB
Gene Name(s): FNTA Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
protein farnesyltransferase beta subunit B 437 Homo sapiens EC#: 2.5.1.58 IUBMB
Gene Name(s): FNTB Gene View
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
U49
Query on U49

B (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]OXATRIAZA-CYCLOOCTADECOSINE-9- CARBONITRILE
COMPOUND 49 (Synonym)
C26 H21 N5 O2
USPFJPDEADLGIG-HSZRJFAPSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
FPP
Query on FPP

B FARNESYL DIPHOSPHATE
C15 H28 O7 P2
VWFJDQUYCIWHTN-YFVJMOTDSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SUC
Query on SUC

B SUCROSE
C12 H22 O11
CZMRCDWAGMRECN-UGDNZRGBSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

B ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ACY
Query on ACY

A ACETIC ACID
C2 H4 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
U49 N/A in BindingDB
IC50: 3.5 nM  BindingMOAD
IC50: 3.5 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.202
  • R-Value Work: 0.184
  • Space Group: P 61

Unit Cell:

Length (Å) Angle (°)
a = 178.13 α = 90.00
b = 178.13 β = 90.00
c = 64.46 γ = 120.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2002-04-08
  • Released Date: 2002-06-19
  • Deposition author(s): Taylor, J.S., Terry, K.L., Beese, L.S.

Revision History

  • 2008-04-28
    Type: Version format compliance
  • 2011-07-13
    Type: Version format compliance