4WI4 | pdb_00004wi4

Structural mapping of the human IgG1 binding site for FcRn: hu3S193 Fc mutation S254A

• PDB DOI: https://doi.org/10.2210/pdb4WI4/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): Yes 


• Deposited: 2014-09-25 Released: 2015-09-30 
• Deposition Author(s): Farrugia, W., Burvenich, I.J.G., Scott, A.M., Ramsland, P.A.
• Funding Organization(s): National Health and Medical Research Council (NHMRC, Australia)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free: 
  0.308 (Depositor), 0.300 (DCC) 
• R-Value Work: 
  0.240 (Depositor), 0.230 (DCC) 
• R-Value Observed: 
  0.246 (Depositor) 

Literature

Structural and functional mapping of human IgG1 binding site for FcRn in vivo using human FcRn transgenic mice

Burvenich, I.J.G., Farrugia, W., Lee, F.T., Catimel, B., Liu, Z., Makris, D., Cao, D., O'Keefe, G., Brechbiel, M.W., King, D., Spirkoska, V., Allan, L., Ramsland, P.A., Scott, A.M.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content 

• Total Structure Weight: 50.24 kDa 
• Atom Count: 3,548 
• Modeled Residue Count: 412 
• Deposited Residue Count: 414 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ig gamma-1 chain C region	A, B	207	Homo sapiens	Mutation(s): 1  Gene Names: IGHG1
UniProt & NIH Common Fund Data Resources
Find proteins for P01857 (Homo sapiens) Explore P01857  Go to UniProtKB:  P01857
PHAROS:  P01857 GTEx:  ENSG00000211896
Glycosylation
Glycosylation Sites: 1		Go to GlyGen: P01857-2

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-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	C, D	8		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G80858MF GlyCosmos:  G80858MF GlyGen:  G80858MF

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO	E [auth A], F [auth B], G [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.80 Å
• R-Value Free:  0.308 (Depositor), 0.300 (DCC) 
• R-Value Work:  0.240 (Depositor), 0.230 (DCC) 
• R-Value Observed: 0.246 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.155	α = 90
b = 79.114	β = 90
c = 141.207	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2015-09-30 
Deposition Author(s): Farrugia, W., Burvenich, I.J.G., Scott, A.M., Ramsland, P.A.

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Funding Organization	Location	Grant Number
National Health and Medical Research Council (NHMRC, Australia)	Australia	542512
National Health and Medical Research Council (NHMRC, Australia)	Australia	1030469

Revision History  

• Version 1.0: 2015-09-30
  Type: Initial release
  
• Version 1.1: 2017-09-13
  Changes: Author supporting evidence, Data collection, Derived calculations
• Version 1.2: 2020-01-08
  Changes: Author supporting evidence, Data collection
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary
• Version 2.1: 2023-12-27
  Changes: Data collection, Database references, Derived calculations, Structure summary
• Version 2.2: 2024-10-09
  Changes: Structure summary