Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

 3D View: Structure | Electron Density | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 89.13 kDa 
• Atom Count: 5755 
• Modelled Residue Count: 688 
• Deposited Residue Count: 764 
• Unique protein chains: 1

4DLO

Crystal structure of the GAIN and HormR domains of brain angiogenesis inhibitor 3 (BAI3)

• DOI: 10.2210/pdb4DLO/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Trichoplusia ni
• Mutation(s): No 


• Deposited: 2012-02-06 Released: 2012-02-22 
• Deposition Author(s): Arac, D., Boucard, A.A., Bolliger, M.F., Nguyen, J., Soltis, M., Sudhof, T.C., Brunger, A.T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.228 
• R-Value Work: 0.186 
• R-Value Observed: 0.188 

Literature

A novel evolutionarily conserved domain of cell-adhesion GPCRs mediates autoproteolysis.

Arac, D., Boucard, A.A., Bolliger, M.F., Nguyen, J., Soltis, S.M., Sudhof, T.C., Brunger, A.T.

(2012) EMBO J 31: 1364-1378

• PubMed: 22333914 
• DOI: 10.1038/emboj.2012.26
• Primary Citation of Related Structures:  
  4DLO, 4DLQ


• PubMed Abstract: 
  

The G protein-coupled receptor (GPCR) Proteolysis Site (GPS) of cell-adhesion GPCRs and polycystic kidney disease (PKD) proteins constitutes a highly conserved autoproteolysis sequence, but its catalytic mechanism remains unknown. Here, we show that unexpectedly the ∼40-residue GPS motif represents an integral part of a much larger ∼320-residue domain that we termed GPCR-Autoproteolysis INducing (GAIN) domain. Crystal structures of GAIN domains from two distantly related cell-adhesion GPCRs revealed a conserved novel fold in which the GPS motif forms five β-strands that are tightly integrated into the overall GAIN domain. The GAIN domain is evolutionarily conserved from tetrahymena to mammals, is the only extracellular domain shared by all human cell-adhesion GPCRs and PKD proteins, and is the locus of multiple human disease mutations. Functionally, the GAIN domain is both necessary and sufficient for autoproteolysis, suggesting an autoproteolytic mechanism whereby the overall GAIN domain fine-tunes the chemical environment in the GPS to catalyse peptide bond hydrolysis. Thus, the GAIN domain embodies a unique, evolutionarily ancient and widespread autoproteolytic fold whose function is likely relevant for GPCR signalling and for multiple human diseases.

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Organizational Affiliation: 

Howard Hughes Medical Institute, Stanford, CA, USA. [e-mail]

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Brain-specific angiogenesis inhibitor 3	A, B	382	Homo sapiens	Mutation(s): 0  Gene Names: BAI3, KIAA0550, ADGRB3
Find proteins for O60242 (Homo sapiens) Explore O60242  Go to UniProtKB:  O60242
NIH Common Fund Data Resources
PHAROS:  O60242 GTEx:  ENSG00000135298

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Chain Length	2D Diagram	Glycosylation
beta-L-fucopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)]2-acetamido-2-deoxy-beta-D-glucopyranose	C, E	3		N-Glycosylation

Entity ID: 3
Molecule	Chains	Chain Length	2D Diagram	Glycosylation
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose	D	2		N-Glycosylation

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
NAG	B	2-acetamido-2-deoxy-beta-D-glucopyranose C8 H15 N O6 OVRNDRQMDRJTHS-FMDGEEDCSA-N
GOL	A, B	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.228 
• R-Value Work: 0.186 
• R-Value Observed: 0.188 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 123.364	α = 90
b = 128.008	β = 90
c = 160.32	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
SHARP	phasing
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2012-02-06 
• Released Date: 2012-02-22 
Deposition Author(s): Arac, D., Boucard, A.A., Bolliger, M.F., Nguyen, J., Soltis, M., Sudhof, T.C., Brunger, A.T.

Revision History  

• Version 1.0: 2012-02-22
  Type: Initial release
  
• Version 1.1: 2012-04-04
  Changes: Database references
• Version 1.2: 2014-07-16
  Changes: Refinement description
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Database references, Derived calculations, Structure summary