3N7S

Crystal structure of the ectodomain complex of the CGRP receptor, a Class-B GPCR, reveals the site of drug antagonism

Structural Biology Knowledgebase: 3N7S SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.208

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3N7S

Classification: MEMBRANE PROTEIN

Total Structure Weight: 50180.80

Macromolecule Entities
Molecule Chains Length Organism Details
Calcitonin gene-related peptide type 1 receptor A, B 115 Homo sapiens Fragment: UNP residues 23-133
Gene Name(s): CALCRL Gene View CGRPR
Receptor activity-modifying protein 1 C, D 96 Homo sapiens Fragment: Extra-cellular domain residues 26-117
Gene Name(s): RAMP1 Gene View

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
3N6
Query on 3N6

A N-{(1S)-5-amino-1-[(4-pyridin-4-ylpiperazin- 1-yl)carbonyl]pentyl}-3,5-dibromo-Nalpha- {[4-(2-oxo-1,4-dihydroquinazolin-3(2H)-yl)piperidin- 1-yl]carbonyl}-D-tyrosinamide
Olcegepant (Synonym)
C38 H47 Br2 N9 O5
ITIXDWVDFFXNEG-JHOUSYSJSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
3N7
Query on 3N7

B N~4~-(5-cyclopropyl-1H-pyrazol-3-yl)-N~2~- 1H-indazol-5-yl-6-methylpyrimidine-2,4-diamine
C18 H18 N8
IUWCYHHHQACRIT-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

C SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
3N6 EC50: 0.026 nM (100) BindingDB
IC50: 0.02 - 4 nM (100) BindingDB
Ki: 0.01 - 3.4 nM (88 - 100) BindingDB

Kd: 20 nM  BindingMOAD
Kd: 20 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.1 Å
  • R-Value Free: 0.226
  • R-Value Work: 0.208
  • Space Group: C 2 2 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 73.31 α = 90.00
b = 119.13 β = 90.00
c = 137.16 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2010-05-27
  • Released Date: 2010-09-15
  • Deposition author(s): Ter Haar, E.

Revision History

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