8VRS

Mucin 16 peptide fused to MBP in complex with 4H11-scFv antibody

• PDB DOI: https://doi.org/10.2210/pdb8VRS/pdb

• Classification: ONCOPROTEIN/IMMUNE SYSTEM
• Organism(s): Escherichia coli, Homo sapiens, Mus musculus
• Expression System: Escherichia coli, Homo sapiens
• Mutation(s): No 


• Deposited: 2024-01-22 Released: 2024-04-03 
• Deposition Author(s): Lee, K., Perry, K., Yeku, O.O., Spriggs, D.R.
• Funding Organization(s): National Institutes of Health/National Cancer Institute (NIH/NCI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.47 Å
• R-Value Free: 0.237 
• R-Value Work: 0.192 
• R-Value Observed: 0.194 

Literature

Structural basis for antibody recognition of the proximal MUC16 ectodomain.

Lee, K., Perry, K., Xu, M., Veillard, I., Kumar, R., Rao, T.D., Rueda, B.R., Spriggs, D.R., Yeku, O.O.

(2024) J Ovarian Res 17: 41-41

• PubMed: 38374055 
• DOI: https://doi.org/10.1186/s13048-024-01373-9
• Primary Citation of Related Structures:  
  8VRR, 8VRS


• PubMed Abstract: 
  

  Mucin 16 (MUC16) overexpression is linked with cancer progression, metastasis, and therapy resistance in high grade serous ovarian cancer and other malignancies. The cleavage of MUC16 forms independent bimodular fragments, the shed tandem repeat sequence which circulates as a protein bearing the ovarian cancer biomarker (CA125) and a proximal membrane-bound component which is critical in MUC16 oncogenic behavior. A humanized, high affinity antibody targeting the proximal ectodomain represents a potential therapeutic agent against MUC16 with lower antigenic potential and restricted human tissue expression.

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Organizational Affiliation: 

Division of Hematology & Oncology, Department of Medicine, Massachusetts General Hospital-Harvard Medical School, Boston, MA, USA.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 142.23 kDa 
• Atom Count: 10,040 
• Modelled Residue Count: 1,252 
• Deposited Residue Count: 1,316 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Maltose/maltodextrin-binding periplasmic protein,Mucin-16	A, C [auth B]	397	Escherichia coli, Homo sapiens This entity is chimeric	Mutation(s): 0  Gene Names: malE, b4034, JW3994, MUC16, CA125
UniProt & NIH Common Fund Data Resources
Find proteins for Q8WXI7 (Homo sapiens) Explore Q8WXI7  Go to UniProtKB:  Q8WXI7
PHAROS:  Q8WXI7 GTEx:  ENSG00000181143
Find proteins for P0AEX9 (Escherichia coli (strain K12)) Explore P0AEX9  Go to UniProtKB:  P0AEX9
UniProt Groups	P0AEX9Q8WXI7

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
4H11 scFv chain	B [auth C], D	261	Mus musculus	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.47 Å
• R-Value Free: 0.237 
• R-Value Work: 0.192 
• R-Value Observed: 0.194 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.81	α = 90
b = 112.634	β = 101.253
c = 110.808	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: 2024-04-03 
Deposition Author(s): Lee, K., Perry, K., Yeku, O.O., Spriggs, D.R.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)	United States	1P01 CA190174-01A1

Revision History  

• Version 1.0: 2024-04-03
  Type: Initial release