4K5Y

Crystal structure of human corticotropin-releasing factor receptor 1 (CRF1R) in complex with the antagonist CP-376395

Structural Biology Knowledgebase: 4K5Y SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.98 Å
  • R-Value Free: 0.265
  • R-Value Work: 0.242

Literature

Macromolecules
Sequence Display for 4K5Y

Classification: MEMBRANE PROTEIN RECEPTOR

Total Structure Weight: 156774.06

Macromolecule Entities
Molecule Chains Length Organism Details
Corticotropin-releasing factor receptor 1, T4-Lysozyme chimeric construct A, B, C 441 Homo sapiens Enterobacteria phage t4 sensu lato EC#: 3.2.1.17 IUBMB
Fragment: UNP P34998 RESIDUES 104-220, UNP P00720 RESIDUES 2-161, UNP P34998 RESIDUES 224-373
Mutation: V120A, L144A, W156A, S160A, N1040S, A1041V, C1054S, C1097S, T1151A, K228A, F260A, I277A, Y309A, F330A, S349A, Y363A
Gene Name(s): E CRHR1 Gene View CRFR CRFR1 CRHR
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: Class B GPCR corticotropin-releasing factor receptor 1 in complex with CP-376395 small-molecule antagonist


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

B (1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}- 1-[(hexadecanoyloxy)methyl]ethyl (9Z)-octadec- 9-enoate
1-Palmitoyl-2-Oleoyl-sn-Glycero-3-[Phospho- (1-glycerol)]; PHOSPHATIDYLGLYCEROL (Synonym)
C40 H77 O10 P
PAZGBAOHGQRCBP-HGWHEPCSSA-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)
1Q5
Query on 1Q5

A, B, C 3,6-dimethyl-N-(pentan-3-yl)-2-(2,4,6-trimethylphenoxy)pyridin- 4-amine
C21 H30 N2 O
VIZBSVDBNLAVAW-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
OLA
Query on OLA

A, C OLEIC ACID
C18 H34 O2
ZQPPMHVWECSIRJ-KTKRTIGZSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
1PE
Query on 1PE

B PENTAETHYLENE GLYCOL
PEG400 (Synonym)
C10 H22 O6
JLFNLZLINWHATN-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
1Q5 IC50: 5.1 nM (91) BindingDB

N/A in BindingMoad
Kd: 6.7 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.98 Å
  • R-Value Free: 0.265
  • R-Value Work: 0.242
  • Space Group: P 2 21 21

Unit Cell:

Length (Å) Angle (°)
a = 86.56 α = 90.00
b = 123.97 β = 90.00
c = 166.83 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2013-04-15
  • Released Date: 2013-07-17
  • Deposition author(s): Hollenstein, K., Kean, J., Bortolato, A., Cheng, R.K.Y., Dore, A.S., Jazayeri, A., Cooke, R.M., Weir, M., Marshall, F.H.

Revision History

  • 2013-10-23
    Type: Citation | Details: Citation update