9KCO | pdb_00009kco

Cryo-EM structure of FD4-bound alpha-synuclein MSA-like fibril

PDB DOI: https://doi.org/10.2210/pdb9KCO/pdb
EM Map EMD-62258: EMDB EMDataResource

Classification: PROTEIN FIBRIL
Organism(s): Homo sapiens
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2024-11-01 Released: 2025-11-05
Deposition Author(s): Zhang, S.Q., Liu, C.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.10 Å
Aggregation State: FILAMENT
Reconstruction Method: HELICAL

wwPDB Validation 3D Report Full Report

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

Literature

Cryo-EM structure of FD4-bound alpha-synuclein MSA-like fibril

Zhang, S.Q., Liu, C.

To be published.

Macromolecule Content

Total Structure Weight: 180.01 kDa
Atom Count: 5,592
Modeled Residue Count: 744
Deposited Residue Count: 1,680
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alpha-synuclein	A [auth F] B [auth G] C [auth H] D [auth I] E [auth J] A [auth F], B [auth G], C [auth H], D [auth I], E [auth J], F [auth K], G [auth L], H [auth M], I [auth N], J [auth O], K [auth P], L [auth Q]	140	Homo sapiens	Mutation(s): 2 Gene Names: SNCA, NACP, PARK1
UniProt & NIH Common Fund Data Resources
Find proteins for P37840 (Homo sapiens) Explore P37840 Go to UniProtKB: P37840
PHAROS: P37840 GTEx: ENSG00000145335
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P37840
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
A1EFL (Subject of Investigation/LOI) Query on A1EFL Download Ideal Coordinates CCD File SDF format, chain X [auth Q] SDF format, chain W [auth Q] SDF format, chain V [auth P] SDF format, chain U [auth O] SDF format, chain T [auth N] SDF format, chain S [auth M] SDF format, chain R [auth K] SDF format, chain Q [auth K] SDF format, chain P [auth J] SDF format, chain O [auth I] SDF format, chain N [auth H] SDF format, chain M [auth G] MOL2 format, chain X [auth Q] MOL2 format, chain W [auth Q] MOL2 format, chain V [auth P] MOL2 format, chain U [auth O] MOL2 format, chain T [auth N] MOL2 format, chain S [auth M] MOL2 format, chain R [auth K] MOL2 format, chain Q [auth K] MOL2 format, chain P [auth J] MOL2 format, chain O [auth I] MOL2 format, chain N [auth H] MOL2 format, chain M [auth G] mmCIF format, chain X [auth Q] mmCIF format, chain W [auth Q] mmCIF format, chain V [auth P] mmCIF format, chain U [auth O] mmCIF format, chain T [auth N] mmCIF format, chain S [auth M] mmCIF format, chain R [auth K] mmCIF format, chain Q [auth K] mmCIF format, chain P [auth J] mmCIF format, chain O [auth I] mmCIF format, chain N [auth H] mmCIF format, chain M [auth G]	M [auth G] N [auth H] O [auth I] P [auth J] Q [auth K] M [auth G], N [auth H], O [auth I], P [auth J], Q [auth K], R [auth K], S [auth M], T [auth N], U [auth O], V [auth P], W [auth Q], X [auth Q]	(2~{R})-1-fluoranyl-3-[[2-[(~{E})-2-[5-[6-(methylamino)pyridin-3-yl]pyridin-2-yl]ethenyl]-1,3-benzothiazol-6-yl]oxy]propan-2-ol C₂₃ H₂₁ F N₄ O₂ S XQKIHSWMPMZBNJ-YXOJNZSOSA-N		Interactions Focus chain M [auth G] Focus chain N [auth H] Focus chain O [auth I] Focus chain P [auth J] Focus chain Q [auth K] Focus chain R [auth K] Focus chain S [auth M] Focus chain T [auth N] Focus chain U [auth O] Focus chain V [auth P] Focus chain W [auth Q] Focus chain X [auth Q] Interactions & Density Focus chain M [auth G] Focus chain N [auth H] Focus chain O [auth I] Focus chain P [auth J] Focus chain Q [auth K] Focus chain R [auth K] Focus chain S [auth M] Focus chain T [auth N] Focus chain U [auth O] Focus chain V [auth P] Focus chain W [auth Q] Focus chain X [auth Q]