9O55 | pdb_00009o55

Structure of a synthetic antibody (RM010) in complex with a class I MHC presenting a hapten-peptide conjugate

• PDB DOI: https://doi.org/10.2210/pdb9O55/pdb
• EM Map EMD-70124: EMDB EMDataResource

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


• Deposited: 2025-04-09 Released: 2025-07-23 
• Deposition Author(s): Hu, Z., Rajak, E., Maso, L., Koide, S.
• Funding Organization(s): National Institutes of Health/National Cancer Institute (NIH/NCI)

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 2.88 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Generation of actionable, cancer-specific neoantigens from KRAS(G12C) with adagrasib

Maso, L., Rajak, E., Hattori, T., Hu, Z., Koide, A., Neel, B., Koide, S.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 4-mer - A1B1C1D1 Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 4-mer - A2B1C1 

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

Biological Assembly Evidence: electron microscopy

Macromolecule Content 

• Total Structure Weight: 46.92 kDa 
• Atom Count: 3,299 
• Modeled Residue Count: 416 
• Deposited Residue Count: 416 
• Unique protein chains: 4

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MHC class I antigen	A	181	Homo sapiens	Mutation(s): 0  Gene Names: HLA-A
UniProt
Find proteins for A0A6B7HGG7 (Homo sapiens) Explore A0A6B7HGG7  Go to UniProtKB:  A0A6B7HGG7

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
GTPase KRas, N-terminally processed	B [auth C]	10	Homo sapiens	Mutation(s): 1  Gene Names: KRAS, KRAS2, RASK2 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: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
RM010 Fab heavy chain	C [auth H]	116	Homo sapiens	Mutation(s): 0

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
RM010 Fab light chain	D [auth L]	109	Homo sapiens	Mutation(s): 0

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 2.88 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2025-07-23 
Deposition Author(s): Hu, Z., Rajak, E., Maso, L., Koide, S.

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Funding Organization	Location	Grant Number
National Institutes of Health/National Cancer Institute (NIH/NCI)	United States	--

Revision History  

• Version 1.0: 2025-07-23
  Type: Initial release