1OW0 | pdb_00001ow0

Crystal structure of human FcaRI bound to IgA1-Fc


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free: 
    0.284 (Depositor), 0.281 (DCC) 
  • R-Value Work: 
    0.252 (Depositor), 0.249 (DCC) 
  • R-Value Observed: 
    0.252 (Depositor) 

Starting Models: experimental
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This is version 2.3 of the entry. See complete history

Literature

Insights into IgA-mediated immune responses from the crystal structures of human Fc-alpha-RI and its complex with IgA1-Fc

Herr, A.B.Ballister, E.R.Bjorkman, P.J.

(2003) Nature 423: 614-620

  • DOI: https://doi.org/10.1038/nature01685
  • Primary Citation Related Structures: 
    1OVZ, 1OW0

  • PubMed Abstract: 

    Immunoglobulin-alpha (IgA)-bound antigens induce immune effector responses by activating the IgA-specific receptor FcalphaRI (CD89) on immune cells. Here we present crystal structures of human FcalphaRI alone and in a complex with the Fc region of IgA1 (Fcalpha). FcalphaRI has two immunoglobulin-like domains that are oriented at approximately right angles to each other. Fcalpha resembles the Fcs of immunoglobulins IgG and IgE, but has differently located interchain disulphide bonds and external rather than interdomain N-linked carbohydrates. Unlike 1:1 FcgammaRIII:IgG and Fc epsilon RI:IgE complexes, two FcalphaRI molecules bind each Fcalpha dimer, one at each Calpha2-Calpha3 junction. The FcalphaRI-binding site on IgA1 overlaps the reported polymeric immunoglobulin receptor (pIgR)-binding site, which might explain why secretory IgA cannot initiate phagocytosis or bind to FcalphaRI-expressing cells in the absence of an integrin co-receptor.


  • Organizational Affiliation
    • Division of Biology 114-96, California Institute of Technology, Pasadena, California 91125, USA.

Macromolecule Content 

  • Total Structure Weight: 102.37 kDa 
  • Atom Count: 6,280 
  • Modeled Residue Count: 798 
  • Deposited Residue Count: 842 
  • Unique protein chains: 2

Macromolecules

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Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Ig alpha-1 chain C region
A, B
214Homo sapiensMutation(s): 1 
Gene Names: IGHA1
UniProt & NIH Common Fund Data Resources
Find proteins for P01876 (Homo sapiens)
Explore P01876 
Go to UniProtKB:  P01876
PHAROS:  P01876
GTEx:  ENSG00000211895 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP01876
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Immunoglobulin alpha Fc receptor
C, D
207Homo sapiensMutation(s): 0 
Gene Names: FCAR OR CD89
UniProt & NIH Common Fund Data Resources
Find proteins for P24071 (Homo sapiens)
Explore P24071 
Go to UniProtKB:  P24071
PHAROS:  P24071
GTEx:  ENSG00000186431 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP24071
Glycosylation
Glycosylation Sites: 4Go to GlyGen: P24071-1
Sequence Annotations
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Reference Sequence

Oligosaccharides

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Entity ID: 3
MoleculeChains Length2D Diagram GlycosylationD Interactions
N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-beta-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[beta-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose
E
8N/A
Glycosylation Resources
GlyTouCan: G95451PL
GlyCosmos: G95451PL
GlyGen: G95451PL
Entity ID: 4
MoleculeChains Length2D Diagram GlycosylationD Interactions
N-acetyl-alpha-neuraminic acid-(2-3)-beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-beta-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose
F
8N/A
Glycosylation Resources
GlyTouCan: G52095QZ
GlyCosmos: G52095QZ
GlyGen: G52095QZ
Entity ID: 5
MoleculeChains Length2D Diagram GlycosylationD Interactions
alpha-D-mannopyranose-(1-3)-[beta-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
G, J
5N-Glycosylation
Glycosylation Resources
GlyTouCan: G08748CW
GlyCosmos: G08748CW
GlyGen: G08748CW
Entity ID: 6
MoleculeChains Length2D Diagram GlycosylationD Interactions
beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-alpha-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
H, K
3N-Glycosylation
Glycosylation Resources
GlyTouCan: G35926TG
GlyCosmos: G35926TG
GlyGen: G35926TG
Entity ID: 7
MoleculeChains Length2D Diagram GlycosylationD Interactions
beta-D-mannopyranose-(1-4)-beta-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
I, L
6N-Glycosylation
Glycosylation Resources
GlyTouCan: G15110KA
GlyCosmos: G15110KA
GlyGen: G15110KA

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.10 Å
  • R-Value Free:  0.284 (Depositor), 0.281 (DCC) 
  • R-Value Work:  0.252 (Depositor), 0.249 (DCC) 
  • R-Value Observed: 0.252 (Depositor) 
Space Group: P 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 142.987α = 90
b = 142.987β = 90
c = 67.655γ = 120
Software Package:
Software NamePurpose
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2003-05-27
    Type: Initial release
  • Version 1.1: 2008-04-29
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Non-polymer description, Version format compliance
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Structure summary
  • Version 2.1: 2021-10-27
    Changes: Database references, Structure summary
  • Version 2.2: 2023-08-16
    Changes: Data collection, Refinement description
  • Version 2.3: 2024-11-13
    Changes: Structure summary