8R3H | pdb_00008r3h

Phalloidin bound F-actin

PDB DOI: https://doi.org/10.2210/pdb8R3H/pdb
EM Map EMD-18866: EMDB EMDataResource

Classification: CYTOSOLIC PROTEIN
Organism(s): Gallus, Amanita phalloides
Expression System: Gallus
Mutation(s): No

Deposited: 2023-11-09 Released: 2025-05-21
Deposition Author(s): Yuan, B., Paraschiakos, T., Windhorst, S., Marlovits, T.C.
Funding Organization(s): German Research Foundation (DFG)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.13 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

Phalloidin bound F-actin

Yuan, B., Paraschiakos, T., Windhorst, S., Marlovits, T.C.

To be published.

Macromolecule Content

Total Structure Weight: 215.23 kDa
Atom Count: 14,670
Modeled Residue Count: 1,861
Deposited Residue Count: 1,906
Unique protein chains: 2

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Actin, alpha skeletal muscle	A [auth F], B [auth G], C [auth H], D [auth I], E [auth J]	377	Gallus	Mutation(s): 0 Gene Names: ACTA1, ACTA EC: 3.6.4
UniProt
Find proteins for P68139 (Gallus gallus) Explore P68139 Go to UniProtKB: P68139
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P68139
Sequence Annotations Expand
Reference Sequence

Find similar proteins by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
phalloidin	F [auth X], G [auth Y], H [auth Z]	7	Amanita phalloides	Mutation(s): 0
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ADP (Subject of Investigation/LOI) Query on ADP Download Ideal Coordinates CCD File SDF format, chain R [auth J] SDF format, chain P [auth I] SDF format, chain N [auth H] SDF format, chain L [auth G] SDF format, chain J [auth F] MOL2 format, chain R [auth J] MOL2 format, chain P [auth I] MOL2 format, chain N [auth H] MOL2 format, chain L [auth G] MOL2 format, chain J [auth F] mmCIF format, chain R [auth J] mmCIF format, chain P [auth I] mmCIF format, chain N [auth H] mmCIF format, chain L [auth G] mmCIF format, chain J [auth F]	J [auth F], L [auth G], N [auth H], P [auth I], R [auth J]	ADENOSINE-5'-DIPHOSPHATE C₁₀ H₁₅ N₅ O₁₀ P₂ XTWYTFMLZFPYCI-KQYNXXCUSA-N		Interactions Focus chain J [auth F] Focus chain L [auth G] Focus chain N [auth H] Focus chain P [auth I] Focus chain R [auth J] Interactions & Density Focus chain J [auth F] Focus chain L [auth G] Focus chain N [auth H] Focus chain P [auth I] Focus chain R [auth J]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain Q [auth J] SDF format, chain O [auth I] SDF format, chain M [auth H] SDF format, chain K [auth G] SDF format, chain I [auth F] MOL2 format, chain Q [auth J] MOL2 format, chain O [auth I] MOL2 format, chain M [auth H] MOL2 format, chain K [auth G] MOL2 format, chain I [auth F] mmCIF format, chain Q [auth J] mmCIF format, chain O [auth I] mmCIF format, chain M [auth H] mmCIF format, chain K [auth G] mmCIF format, chain I [auth F]	I [auth F], K [auth G], M [auth H], O [auth I], Q [auth J]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain I [auth F] Focus chain K [auth G] Focus chain M [auth H] Focus chain O [auth I] Focus chain Q [auth J] Interactions & Density Focus chain I [auth F] Focus chain K [auth G] Focus chain M [auth H] Focus chain O [auth I] Focus chain Q [auth J]

Modified Residues 4 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
HIC Query on HIC	A [auth F], B [auth G], C [auth H], D [auth I], E [auth J]	L-PEPTIDE LINKING	C₇ H₁₁ N₃ O₂		HIS
ALO Query on ALO	F [auth X], G [auth Y], H [auth Z]	L-PEPTIDE LINKING	C₄ H₉ N O₃		THR
G5G Query on G5G	F [auth X], G [auth Y], H [auth Z]	L-PEPTIDE LINKING	C₆ H₁₃ N O₄		LEU
HYP Query on HYP	F [auth X], G [auth Y], H [auth Z]	L-PEPTIDE LINKING	C₅ H₉ N O₃		PRO