7LUS | pdb_00007lus

IgG2 Fc Charge Pair Mutation version 1 (CPMv1)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free: 
    0.237 (Depositor) 
  • R-Value Work: 
    0.181 (Depositor) 
  • R-Value Observed: 
    0.184 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 7LUS

This is version 1.3 of the entry. See complete history

Literature

Next generation Fc scaffold for multispecific antibodies.

Estes, B.Sudom, A.Gong, D.Whittington, D.A.Li, V.Mohr, C.Li, D.Riley, T.P.Shi, S.D.Zhang, J.Garces, F.Wang, Z.

(2021) iScience 24: 103447-103447

  • DOI: https://doi.org/10.1016/j.isci.2021.103447
  • Primary Citation Related Structures: 
    7LUR, 7LUS

  • PubMed Abstract: 

    Bispecific antibodies (Bispecifics) demonstrate exceptional clinical potential to address some of the most complex diseases. However, Bispecific production in a single cell often requires the correct pairing of multiple polypeptide chains for desired assembly. This is a considerable hurdle that hinders the development of many immunoglobulin G (IgG)-like bispecific formats. Our approach focuses on the rational engineering of charged residues to facilitate the chain pairing of distinct heavy chains (HC). Here, we deploy structure-guided protein design to engineer charge pair mutations (CPMs) placed in the CH3-CH3' interface of the fragment crystallizable (Fc) region of an antibody (Ab) to correctly steer heavy chain pairing. When used in combination with our stable effector functionless 2 (SEFL2.2) technology, we observed high pairing efficiency without significant losses in expression yields. Furthermore, we investigate the relationship between CPMs and the sequence diversity in the parental antibodies, proposing a rational strategy to deploy these engineering technologies.


  • Organizational Affiliation
    • Department of Therapeutics Discovery, Amgen Research, Amgen Inc., Thousand Oaks, CA 91320, USA.

Macromolecule Content 

  • Total Structure Weight: 50.16 kDa 
  • Atom Count: 3,677 
  • Modeled Residue Count: 415 
  • Deposited Residue Count: 415 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Immunoglobulin heavy constant gamma 2A [auth B]207Homo sapiensMutation(s): 3 
Gene Names: IGHG2
UniProt & NIH Common Fund Data Resources
Find proteins for P01859 (Homo sapiens)
Explore P01859 
Go to UniProtKB:  P01859
PHAROS:  P01859
GTEx:  ENSG00000211893 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP01859
Glycosylation
Glycosylation Sites: 1Go to GlyGen: P01859-2
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Immunoglobulin heavy constant gamma 2B [auth A]208Homo sapiensMutation(s): 3 
Gene Names: IGHG2
UniProt & NIH Common Fund Data Resources
Find proteins for P01859 (Homo sapiens)
Explore P01859 
Go to UniProtKB:  P01859
PHAROS:  P01859
GTEx:  ENSG00000211893 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP01859
Glycosylation
Glycosylation Sites: 1Go to GlyGen: P01859-2
Sequence Annotations
Expand
Reference Sequence

Oligosaccharides

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Entity ID: 3
MoleculeChains Length2D Diagram GlycosylationD 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
8N-Glycosylation
Glycosylation Resources
GlyTouCan: G80858MF
GlyCosmos: G80858MF
GlyGen: G80858MF

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.45 Å
  • R-Value Free:  0.237 (Depositor) 
  • R-Value Work:  0.181 (Depositor) 
  • R-Value Observed: 0.184 (Depositor) 
Space Group: P 61
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 112.584α = 90
b = 112.584β = 90
c = 99.417γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
SCALEPACKdata scaling
PHASERphasing
PDB_EXTRACTdata extraction
HKL-2000data reduction

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2021-09-15
    Type: Initial release
  • Version 1.1: 2021-12-22
    Changes: Database references
  • Version 1.2: 2023-10-18
    Changes: Data collection, Refinement description
  • Version 1.3: 2024-11-20
    Changes: Structure summary