5AFB | pdb_00005afb

Crystal structure of the Latrophilin3 Lectin and Olfactomedin Domains


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.16 Å
  • R-Value Free: 
    0.245 (Depositor), 0.248 (DCC) 
  • R-Value Work: 
    0.204 (Depositor), 0.212 (DCC) 
  • R-Value Observed: 
    0.206 (Depositor) 

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This is version 1.4 of the entry. See complete history

Literature

Structural Basis of Latrophilin-Flrt Interaction.

Jackson, V.A.Del Toro, D.Carrasquero, M.Roversi, P.Harlos, K.Klein, R.Seiradake, E.

(2015) Structure 23: 774

  • DOI: https://doi.org/10.1016/j.str.2015.01.013
  • Primary Citation Related Structures: 
    5AFB

  • PubMed Abstract: 

    Latrophilins, receptors for spider venom α-latrotoxin, are adhesion type G-protein-coupled receptors with emerging functions in synapse development. The N-terminal region binds the endogenous cell adhesion molecule FLRT, a major regulator of cortical and synapse development. We present crystallographic data for the mouse Latrophilin3 lectin and olfactomedin-like (Olf) domains, thereby revealing the Olf β-propeller fold and conserved calcium-binding site. We locate the FLRT-Latrophilin binding surfaces by a combination of sequence conservation analysis, point mutagenesis, and surface plasmon resonance experiments. In stripe assays, we show that wild-type Latrophilin3 and its high-affinity interactor FLRT2, but not the binding-impaired mutants we generated, promote HeLa cell adhesion. In contrast, cortical neurons expressing endogenous FLRTs are repelled by wild-type Latrophilin3 and not by the binding-impaired mutant. Taken together, we present molecular level insights into Latrophilin structure, its FLRT-binding mechanism, and a role for Latrophilin and FLRT that goes beyond a simply adhesive interaction.


  • Organizational Affiliation
    • Department of Biochemistry, Oxford University, South Parks Road, Oxford OX1 3QU, UK.

Macromolecule Content 

  • Total Structure Weight: 44.51 kDa 
  • Atom Count: 2,930 
  • Modeled Residue Count: 347 
  • Deposited Residue Count: 384 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
LATROPHILIN-3384Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q9HAR2 (Homo sapiens)
Explore Q9HAR2 
Go to UniProtKB:  Q9HAR2
PHAROS:  Q9HAR2
GTEx:  ENSG00000150471 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9HAR2
Glycosylation
Glycosylation Sites: 1Go to GlyGen: Q9HAR2-1
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.16 Å
  • R-Value Free:  0.245 (Depositor), 0.248 (DCC) 
  • R-Value Work:  0.204 (Depositor), 0.212 (DCC) 
  • R-Value Observed: 0.206 (Depositor) 
Space Group: I 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 78.43α = 90
b = 96.65β = 90
c = 101.64γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement
xia2data reduction
xia2data scaling
autoSHARPphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2015-03-18
    Type: Initial release
  • Version 1.1: 2015-04-22
    Changes: Database references
  • Version 1.2: 2016-03-09
    Changes: Database references, Other, Structure summary
  • Version 1.3: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Data collection, Derived calculations, Other, Structure summary
  • Version 1.4: 2024-10-09
    Changes: Data collection, Database references, Structure summary