8UDR

Structure of the P1B7 antibody bound to the Sotorasib-modified KRas G12C peptide presented by the A*03:01 MHC I complex

• PDB DOI: https://doi.org/10.2210/pdb8UDR/pdb
• EM Map EMD-42151: EMDB EMDataResource

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


• Deposited: 2023-09-28 Released: 2024-10-16 
• Deposition Author(s): Chan, L.M., Roweder, P.J., Craik, C.S., Verba, K.A.
• Funding Organization(s): National Institutes of Health/National Cancer Institute (NIH/NCI), National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS), Howard Hughes Medical Institute (HHMI)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 3.10 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Therapeutic targeting and structural characterization of a Sotorasib-haptenated KRAS G12C MHC I complex

Pandey, A., Rohweder, P.J., Chan, L.M., Ongpipattanakul, C., Chung, D., Paolella, B., Quimby, F.M., Nguyen, N., Verba, K.A., Evans, M.J., Craik, C.S.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 5-mer - A1B1C1D1E1 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content

• Total Structure Weight: 91.64 kDa 
• Atom Count: 6,393 
• Modelled Residue Count: 814 
• Deposited Residue Count: 823 
• Unique protein chains: 5

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HLA class I histocompatibility antigen, A alpha chain	A	275	Homo sapiens	Mutation(s): 0  Gene Names: HLA-A
UniProt & NIH Common Fund Data Resources
Find proteins for P04439 (Homo sapiens) Explore P04439  Go to UniProtKB:  P04439
PHAROS:  P04439 GTEx:  ENSG00000206503

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Beta-2-microglobulin	B	99	Homo sapiens	Mutation(s): 0  Gene Names: B2M, CDABP0092, HDCMA22P
UniProt & NIH Common Fund Data Resources
Find proteins for P61769 (Homo sapiens) Explore P61769  Go to UniProtKB:  P61769
PHAROS:  P61769 GTEx:  ENSG00000166710

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
GTPase KRas, N-terminally processed	C	10	Homo sapiens	Mutation(s): 1  EC: 3.6.5.2
UniProt & NIH Common Fund Data Resources
Find proteins for P01116 (Homo sapiens) Explore P01116  Go to UniProtKB:  P01116
PHAROS:  P01116 GTEx:  ENSG00000133703

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
P1B7 Heavy Chain	D	226	Homo sapiens	Mutation(s): 0

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
P1B7 Light Chain	E	213	Homo sapiens	Mutation(s): 0

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MOV (Subject of Investigation/LOI)	F [auth D]	AMG 510 (bound form) C30 H32 F2 N6 O3 ZIXPBHVQXGLHAG-SFHVURJKSA-N

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 3.10 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

EM Software:

Task	Software Package	Version
RECONSTRUCTION	cryoSPARC	3.2.0

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-10-16 
Deposition Author(s): Chan, L.M., Roweder, P.J., Craik, C.S., Verba, K.A.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)	United States	P41-GM103393
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	T32 GM 064337
Howard Hughes Medical Institute (HHMI)	United States	--

Revision History  

• Version 1.0: 2024-10-16
  Type: Initial release