1LD7

Co-crystal structure of Human Farnesyltransferase with farnesyldiphosphate and inhibitor compound 66

Structural Biology Knowledgebase: 1LD7 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.219
  • R-Value Work: 0.195

Literature

Macromolecules
Sequence Display for 1LD7

Classification: TRANSFERASE

Total Structure Weight: 94931.80

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 4 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
U66
Query on U66

B (20S)-19,20,22,23-TETRAHYDRO-19-OXO-5H,21H- 18,20-ETHANO-12,14-ETHENO-6,10-METHENOBENZ[D]IMIDAZO[4,3- L][1,6,9,13]OXATRIAZACYCLONOADECOSINE-9-CARBONITRILE
COMPOUND 66 (Synonym)
C27 H27 N5 O2
GBEQWWUQNVMGMR-LLHWJCAFSA-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)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
U66 N/A in BindingDB
IC50: 1.1 nM  BindingMOAD
IC50: 1.1 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.0 Å
  • R-Value Free: 0.219
  • R-Value Work: 0.195
  • Space Group: P 61

Unit Cell:

Length (Å) Angle (°)
a = 178.73 α = 90.00
b = 178.73 β = 90.00
c = 64.55 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

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4