5LG1

Room temperature structure of human IgG4-Fc from crystals analysed in situ

• PDB DOI: https://doi.org/10.2210/pdb5LG1/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Homo sapiens
• Expression System: Homo sapiens
• Mutation(s): No 


• Deposited: 2016-07-05 Released: 2016-12-14 
• Deposition Author(s): Davies, A.M., Rispens, T., Ooijevaar-de Heer, P., Aalberse, R.C., Sutton, B.J.
• Funding Organization(s): Medical Research Council (United Kingdom)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.231 
• R-Value Work: 0.175 
• R-Value Observed: 0.178 

Biological Assembly 1  

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

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 51.42 kDa 
• Atom Count: 3,488 
• Modelled Residue Count: 417 
• Deposited Residue Count: 428 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Ig gamma-4 chain C region	A, B	214	Homo sapiens	Mutation(s): 0  Gene Names: IGHG4
UniProt & NIH Common Fund Data Resources
Find proteins for P01861 (Homo sapiens) Explore P01861  Go to UniProtKB:  P01861
PHAROS:  P01861 GTEx:  ENSG00000211892

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.70 Å
• R-Value Free: 0.231 
• R-Value Work: 0.175 
• R-Value Observed: 0.178 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 73.294	α = 90
b = 81.934	β = 90
c = 103.883	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2016-12-14 
Deposition Author(s): Davies, A.M., Rispens, T., Ooijevaar-de Heer, P., Aalberse, R.C., Sutton, B.J.

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Funding Organization	Location	Grant Number
Medical Research Council (United Kingdom)	United Kingdom	G1100090

Revision History  

• Version 1.0: 2016-12-14
  Type: Initial release
  
• Version 1.1: 2016-12-28
  Changes: Database references
• Version 1.2: 2017-08-30
  Changes: Author supporting evidence
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Atomic model, Data collection, Derived calculations, Structure summary
• Version 2.1: 2024-01-10
  Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary