1FRT

CRYSTAL STRUCTURE OF THE COMPLEX OF RAT NEONATAL FC RECEPTOR WITH FC


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.50 Å
  • R-Value Work: 0.423 
  • R-Value Observed: 0.423 

wwPDB Validation   3D Report Full Report


This is version 2.0 of the entry. See complete history


Literature

Crystal structure of the complex of rat neonatal Fc receptor with Fc.

Burmeister, W.P.Huber, A.H.Bjorkman, P.J.

(1994) Nature 372: 379-383

  • DOI: 10.1038/372379a0
  • Primary Citation of Related Structures:  
    1FRT

  • PubMed Abstract: 
  • The neonatal Fc receptor (FcRn) transports maternal immunoglobulin G (IgG) to the bloodstream of the newborn. FcRn is structurally similar to class I major histocompatibility complex (MHC) molecules, despite differences in the ligands they bind (the Fc portion of IgG and antigenic peptides, respectively) ...

    The neonatal Fc receptor (FcRn) transports maternal immunoglobulin G (IgG) to the bloodstream of the newborn. FcRn is structurally similar to class I major histocompatibility complex (MHC) molecules, despite differences in the ligands they bind (the Fc portion of IgG and antigenic peptides, respectively). A low-resolution crystal structure of the complex between FcRn and Fc localizes the binding site for Fc to the side of FcRn, distinct from the tops of the alpha 1 and alpha 2 domains which serve as the peptide and T-cell receptor binding sites in class I molecules. FcRn binds to Fc at the interface between the Fc CH2 and CH3 domains, which contains several histidine residues that could account for the sharply pH-dependent FcRn/IgG interaction. A dimer of FcRn heterodimers observed in the co-crystals and in the crystals of FcRn alone could be involved in binding Fc, correlating with the 2:1 binding stoichiometry between FcRn and IgG (ref. 4) and suggesting an unusual orientation of FcRn on the membrane.


    Related Citations: 
    • Crystal Structure at 2.2 Angstroms Resolution of the Mhc-Related Neonatal Fc Receptor
      Burmeister, W.P., Gastinel, L.N., Simister, N.E., Blum, M.L., Bjorkman, P.J.
      (1994) Nature 372: 336
    • Investigation of the Interaction between the Class I Mhc-Related Fc Receptor and its Immunoglobulin G Ligand
      Raghavan, M., Chen, M.Y., Gastinel, L.N., Bjorkman, P.J.
      (1994) Immunity 1: 303
    • Crystallization and Stoichiometry of Binding of a Complex between a Rat Intestinal Fc Receptor and Fc
      Huber, A.H., Kelly, R.F., Gastinel, L.N., Bjorkman, P.J.
      (1993) J Mol Biol 230: 1077
    • Crystallographic Refinement and Atomic Models of a Human Fc Fragment and its Complex with Fragment B of Protein a from Staphylococcus Aureus at 2.9-And 2.8-Angstroms Resolution
      Deisenhofer, J.
      (1981) Biochemistry 20: 2361

    Organizational Affiliation

    Division of Biology 156-29, California Institute of Technology, Pasadena 91125.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
NEONATAL FC RECEPTORA269Rattus norvegicusMutation(s): 0 
Gene Names: BETA-2-MICROGLOBULINFcgrtFcrn
UniProt
Find proteins for P13599 (Rattus norvegicus)
Explore P13599 
Go to UniProtKB:  P13599
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
BETA 2-MICROGLOBULINB99Rattus norvegicusMutation(s): 0 
Gene Names: BETA-2-MICROGLOBULINB2m
UniProt
Find proteins for P07151 (Rattus norvegicus)
Explore P07151 
Go to UniProtKB:  P07151
Protein Feature View
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
IGG FCC205Rattus norvegicusMutation(s): 0 
Gene Names: BETA-2-MICROGLOBULIN
Protein Feature View
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  • Reference Sequence
Oligosaccharides

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Entity ID: 4
MoleculeChainsChain Length2D DiagramGlycosylation3D Interactions
alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranoseD2N-Glycosylation Oligosaccharides Interaction
Glycosylation Resources
GlyTouCan:  G86851RC
GlyCosmos:  G86851RC
GlyGen:  G86851RC
Entity ID: 5
MoleculeChainsChain Length2D DiagramGlycosylation3D Interactions
beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)]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-glucopyranoseE9N-Glycosylation Oligosaccharides Interaction
Glycosylation Resources
GlyTouCan:  G27919IH
GlyCosmos:  G27919IH
GlyGen:  G27919IH
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NAG
Query on NAG

Download Ideal Coordinates CCD File 
F [auth A]2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.50 Å
  • R-Value Work: 0.423 
  • R-Value Observed: 0.423 
  • Space Group: I 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 125α = 90
b = 145β = 90
c = 216.5γ = 90
Software Package:
Software NamePurpose
X-PLORmodel building
X-PLORrefinement
X-PLORphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1995-02-14
    Type: Initial release
  • Version 1.1: 2008-03-03
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Non-polymer description, Version format compliance
  • Version 1.3: 2020-02-05
    Changes: Advisory, Data collection, Database references, Derived calculations, Other
  • Version 2.0: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary