1S64

Rat protein geranylgeranyltransferase type-I complexed with L-778,123 and a sulfate anion


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.55 Å
  • R-Value Free: 0.213
  • R-Value Work: 0.192

Literature

Macromolecules
Sequence Display for 1S64

Classification: TRANSFERASE

Total Structure Weight: 524280.53

Macromolecule Entities
Molecule Chains Length Organism Details
Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit A, C, E..., G, I, KA, C, E, G, I, K 377 Rattus norvegicus EC#: 2.5.1.58 IUBMB 2.5.1.59 IUBMB
Fragment: alpha subunit
Gene Name(s): Fnta
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Geranylgeranyl transferase type I beta subunit B, D, F..., H, J, LB, D, F, H, J, L 377 Rattus norvegicus EC#: 2.5.1.59 IUBMB
Fragment: beta subunit
Gene Name(s): Pggt1b
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 5 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
778
Query on 778

B, D, F, H, J, L 4-[(5-{[4-(3-CHLOROPHENYL)-3-OXOPIPERAZIN- 1-YL]METHYL}-1H-IMIDAZOL-1-YL)METHYL]BENZONITRILE
123, (Synonym)
C22 H20 Cl N5 O
JNUGFGAVPBYSHF-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MES
Query on MES

B, D, F, H, J, L 2-(N-MORPHOLINO)-ETHANESULFONIC ACID
C6 H13 N O4 S
SXGZJKUKBWWHRA-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

B, D, F, H, J, L SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
ZN
Query on ZN

B, D, F, H, J, L ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
CL
Query on CL

C, D, F, G, H, I, J, K, L CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
778 EC50: 6800 nM (97) BindingDB
IC50: 98 - 98000 nM (97) BindingDB

N/A in BindingMoad
Ki: 4 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.55 Å
  • R-Value Free: 0.213
  • R-Value Work: 0.192
  • Space Group: C 1 2 1

Unit Cell:

Length (Å) Angle (°)
a = 271.15 α = 90.00
b = 268.68 β = 131.55
c = 184.62 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2004-01-22
  • Released Date: 2004-07-27
  • Deposition author(s): Reid, T.S., Long, S.B., Beese, L.S.

Revision History

  • 2008-04-29
    Type: Version format compliance
  • 2011-07-13
    Type: Version format compliance