9O5Y | pdb_00009o5y

VAR2CSA in complex with V2C.015 Fab

PDB DOI: https://doi.org/10.2210/pdb9O5Y/pdb
EM Map EMD-70153: EMDB EMDataResource

Classification: IMMUNE SYSTEM
Organism(s): Homo sapiens, Plasmodium falciparum FCR-3/Gambia
Expression System: Cricetulus griseus, Spodoptera frugiperda
Mutation(s): No

Deposited: 2025-04-10 Released: 2026-11-04
Deposition Author(s): Raghavan, S.S.R., Ward, A.B.
Funding Organization(s): Bill & Melinda Gates Foundation

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.50 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 9O5Y

This is version 1.0 of the entry. See complete history.

Literature

Cryo-EM structure of VAR2CSA in complex with V2C.015 Fab

Raghavan, S.S.R., Ward, A.B.

To be published.

Macromolecule Content

Total Structure Weight: 337.42 kDa
Atom Count: 4,360
Modeled Residue Count: 545
Deposited Residue Count: 2,917
Unique protein chains: 3

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
V2C.015 Heavy chain	A [auth H]	122	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
Sequence Annotations Expand
Reference Sequence

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Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
V2C.015 Light chain	B [auth L]	112	Homo sapiens	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
Sequence Annotations Expand
Reference Sequence

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Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Erythrocyte membrane protein 1, PfEMP1	C [auth A]	2,683	Plasmodium falciparum FCR-3/Gambia	Mutation(s): 0 Gene Names: PFFVO_03259
UniProt
Find proteins for A0A024V5I6 (Plasmodium falciparum Vietnam Oak-Knoll) Explore A0A024V5I6 Go to UniProtKB: A0A024V5I6
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A024V5I6
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 3.50 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21_5207

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2026-11-04

Deposition Author(s):

Raghavan, S.S.R.

Funding Organization	Location	Grant Number
Bill & Melinda Gates Foundation	United States	--

Revision History (Full details and data files)

Version 1.0: 2026-11-04
Type: Initial release