7C6A

Crystal structure of AT2R-BRIL and SRP2070_Fab complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.40 Å
  • R-Value Free: 0.285 
  • R-Value Work: 0.235 
  • R-Value Observed: 0.238 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

The discovery of a new antibody for BRIL-fused GPCR structure determination.

Miyagi, H.Asada, H.Suzuki, M.Takahashi, Y.Yasunaga, M.Suno, C.Iwata, S.Saito, J.I.

(2020) Sci Rep 10: 11669-11669

  • DOI: 10.1038/s41598-020-68355-x
  • Primary Citation of Related Structures:  
    7C61, 7C6A

  • PubMed Abstract: 
  • G-protein-coupled receptors (GPCRs)-the largest family of cell-surface membrane proteins-mediate the intracellular signal transduction of many external ligands. Thus, GPCRs have become important drug targets. X-ray crystal structures of GPCRs are very useful for structure-based drug design (SBDD) ...

    G-protein-coupled receptors (GPCRs)-the largest family of cell-surface membrane proteins-mediate the intracellular signal transduction of many external ligands. Thus, GPCRs have become important drug targets. X-ray crystal structures of GPCRs are very useful for structure-based drug design (SBDD). Herein, we produced a new antibody (SRP2070) targeting the thermostabilised apocytochrome b562 from Escherichia coli M7W/H102I/R106L (BRIL). We found that a fragment of this antibody (SRP2070Fab) facilitated the crystallisation of the BRIL-tagged, ligand bound GPCRs, 5HT 1B and AT 2 R. Furthermore, the electron densities of the ligands were resolved, suggesting that SPR2070Fab is versatile and adaptable for GPCR SBDD. We anticipate that this new tool will significantly accelerate structure determination of other GPCRs and the design of small molecular drugs targeting them.


    Organizational Affiliation

    R&D Division, Kyowa Kirin Co., Ltd., Shizuoka, Japan. jun.saito.su@kyowakirin.com.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
IgG Light ChainA [auth L]214Mus musculusMutation(s): 0 
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
IgG heavy chainB [auth H]224Mus musculusMutation(s): 0 
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Type-2 angiotensin II receptor,Soluble cytochrome b562,Type-2 angiotensin II receptorC [auth A]422Homo sapiensEscherichia coliMutation(s): 5 
Gene Names: AGTR2cybC
Membrane Entity: Yes 
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Find proteins for P0ABE7 (Escherichia coli)
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Go to UniProtKB:  P0ABE7
Find proteins for P50052 (Homo sapiens)
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PHAROS:  P50052
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
SAR1, ILE8-ANGIOTENSIN IID [auth B]8Homo sapiensMutation(s): 0 
Gene Names: AGTSERPINA8
Membrane Entity: Yes 
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Find proteins for P01019 (Homo sapiens)
Explore P01019 
Go to UniProtKB:  P01019
PHAROS:  P01019
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  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
SAR
Query on SAR
D [auth B]PEPTIDE LINKINGC3 H7 N O2GLY
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.40 Å
  • R-Value Free: 0.285 
  • R-Value Work: 0.235 
  • R-Value Observed: 0.238 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 40.23α = 90
b = 131.04β = 97.07
c = 113.8γ = 90
Software Package:
Software NamePurpose
Aimlessdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata reduction

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-07-29
    Type: Initial release