9YCF | pdb_00009ycf

RSV-F SC-DM bound to a designed protein minibinder, cb13

PDB DOI: https://doi.org/10.2210/pdb9YCF/pdb
EM Map EMD-72769: EMDB EMDataResource

Classification: PROTEIN BINDING
Organism(s): synthetic construct, Homo sapiens
Expression System: Escherichia coli, Homo sapiens
Mutation(s): No

Deposited: 2025-09-18 Released: 2026-07-15
Deposition Author(s): Borst, A.J., Skotheim, R.
Funding Organization(s): Howard Hughes Medical Institute (HHMI)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 4.63 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 9YCF

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

Literature

Accelerating protein design by scaling experimental characterization

Qian, J., Milles, L.F., Wicky, B.I.M., Ragotte, R.J., Borst, A.J.

To be published.

Macromolecule Content

Total Structure Weight: 177.4 kDa
Atom Count: 7,045
Modeled Residue Count: 1,423
Deposited Residue Count: 1,600
Unique protein chains: 2

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
cb13	A [auth G]	73	synthetic construct	Mutation(s): 0

Find similar proteins by:

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Fusion glycoprotein F0	B [auth A], C [auth B], D [auth C]	509	Homo sapiens	Mutation(s): 0
UniProt
Find proteins for P12568 (Human respiratory syncytial virus) Explore P12568 Go to UniProtKB: P12568
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P12568
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 4.63 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	1.21.2_5419
RECONSTRUCTION	cryoSPARC

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-07-15

Deposition Author(s):

Funding Organization	Location	Grant Number
Howard Hughes Medical Institute (HHMI)	United States	--

Revision History (Full details and data files)

Version 1.0: 2026-07-15
Type: Initial release

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.