6UGY

Crystal structure of the Fc fragment of anti-TNFa antibody infliximab (Remicade) in a primative orthorhombic crystal form, Lot C

• PDB DOI: https://doi.org/10.2210/pdb6UGY/pdb

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


• Deposited: 2019-09-26 Released: 2019-11-13 
• Deposition Author(s): Mayclin, S.J., Edwards, T.E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.228 
• R-Value Work: 0.178 
• R-Value Observed: 0.181 

Literature

Crystal Structures of PF-06438179/GP1111, an Infliximab Biosimilar.

Lerch, T.F., Sharpe, P., Mayclin, S.J., Edwards, T.E., Polleck, S., Rouse, J.C., Zou, Q., Conlon, H.D.

(2020) BioDrugs 34: 77-87

• PubMed: 31650490 
• DOI: https://doi.org/10.1007/s40259-019-00390-1
• Primary Citation of Related Structures:  
  6UGS, 6UGT, 6UGU, 6UGV, 6UGW, 6UGX, 6UGY


• PubMed Abstract: 
  

  Higher-order structure (HOS) assessment is an important component of biosimilarity evaluations. While established spectroscopic methods are routinely used to characterize structure and evaluate similarity, the addition of X-ray crystallographic analysis to these biophysical methods enables orthogonal elucidation of HOS at higher resolution.

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Organizational Affiliation: 

Analytical Research and Development, Biotherapeutics Pharmaceutical Sciences, Pfizer Inc., Chesterfield, MO, 63017, USA. [e-mail].

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: 30.04 kDa 
• Atom Count: 1,864 
• Modelled Residue Count: 206 
• Deposited Residue Count: 255 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Remicade Fc	A	255	Homo sapiens	Mutation(s): 0
UniProt
Find proteins for P0DOX5 (Homo sapiens) Explore P0DOX5  Go to UniProtKB:  P0DOX5

Oligosaccharides

Help

Entity ID: 2
Molecule	Chains	Length	2D Diagram	Glycosylation	3D Interactions
beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-alpha-D-mannopyranose-(1-6)-[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-glucopyranose	B	8		N-Glycosylation
Glycosylation Resources
GlyTouCan:  G61334IA GlyCosmos:  G61334IA GlyGen:  G61334IA

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN	C [auth A], D [auth A], E [auth A]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
ACT	F [auth A]	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.228 
• R-Value Work: 0.178 
• R-Value Observed: 0.181 
• Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 50.34	α = 90
b = 148.65	β = 90
c = 75.98	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
XSCALE	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
PHASER	phasing

Structure Validation

Currently 6UGY does not have a validation slider image.

Entry History 

Deposition Data

• Released Date: 2019-11-13 
Deposition Author(s): Mayclin, S.J., Edwards, T.E.

Revision History  

• Version 1.0: 2019-11-13
  Type: Initial release
  
• Version 1.1: 2020-02-12
  Changes: Data collection, Database references
• Version 2.0: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Advisory, Atomic model, Data collection, Derived calculations, Structure summary
• Version 2.1: 2023-10-11
  Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary