4JKV

Structure of the human smoothened 7TM receptor in complex with an antitumor agent

Structural Biology Knowledgebase: 4JKV SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.231
  • R-Value Work: 0.200

Literature

Macromolecules
Sequence Display for 4JKV

Classification: MEMBRANE PROTEIN

Total Structure Weight: 110455.01

Macromolecule Entities
Molecule Chains Length Organism Details
Soluble cytochrome b562, Smoothened homolog A, B 475 Escherichia coli Homo sapiens Fragment: BRIL
Mutation: M7W, H102I
Gene Name(s): cybC SMO Gene View SMOH
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Membrane Protein

Source: mpstruc | Group: ALPHA-HELICAL

Subgroup Name: G Protein-Coupled Receptors (GPCRs)

Protein Name: Smoothened (SMO) receptor with bound antagonist, LY2940680


Small Molecules
Ligands 6 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
1KS
Query on 1KS

A, B 4-fluoro-N-methyl-N-{1-[4-(1-methyl-1H-pyrazol- 5-yl)phthalazin-1-yl]piperidin-4-yl}-2-(trifluoromethyl)benzamide
C26 H24 F4 N6 O
SZBGQDXLNMELTB-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
OLC
Query on OLC

A, B (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate
1-Oleoyl-R-glycerol (Synonym)
C21 H40 O4
RZRNAYUHWVFMIP-GDCKJWNLSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
OLA
Query on OLA

A, B OLEIC ACID
C18 H34 O2
ZQPPMHVWECSIRJ-KTKRTIGZSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PG4
Query on PG4

A TETRAETHYLENE GLYCOL
C8 H18 O5
UWHCKJMYHZGTIT-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PGE
Query on PGE

A TRIETHYLENE GLYCOL
C6 H14 O4
ZIBGPFATKBEMQZ-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
PEG
Query on PEG

A, B DI(HYDROXYETHYL)ETHER
C4 H10 O3
MTHSVFCYNBDYFN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 0.231
  • R-Value Work: 0.200
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 75.44 α = 90.00
b = 98.18 β = 103.27
c = 84.29 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-03-11
  • Released Date: 2013-04-24
  • Deposition author(s): Wang, C., Wu, H., Katritch, V., Han, G.W., Huang, X., Liu, W., Siu, F.Y., Roth, B.L., Cherezov, V., Stevens, R.C., GPCR Network (GPCR)

Revision History

  • 2013-11-27
    Type: Function and keywords | Details: Change PSI:Biology to PSI-Biology
  • 2013-05-29
    Type: Citation | Details: Citation update
  • 2013-05-15
    Type: Citation | Details: Citation update