8P1E

X-ray structure of acetylcholine-binding protein (AChBP) in complex with FL001613.

PDB DOI: https://doi.org/10.2210/pdb8P1E/pdb

Classification: CHOLINE-BINDING PROTEIN
Organism(s): Lymnaea stagnalis
Expression System: Spodoptera frugiperda
Mutation(s): No

Deposited: 2023-05-11 Released: 2024-05-08
Deposition Author(s): Cederfelt, D., Boronat, P., Dobritzsch, D., Hennig, S., Fitzgerald, E.A., de Esch, I.J.P., Danielson, U.H.
Funding Organization(s): Marie Sklodowska-Curie Actions, FragNET ITN

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.10 Å
R-Value Free: 0.241
R-Value Work: 0.208
R-Value Observed: 0.210

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.1 of the entry. See complete history.

Literature

Elucidating the regulation of ligand gated ion channels via biophysical studies of ligand-induced conformational dynamics of acetylcholine binding proteins

Fitzgerald, E.A., Cederfelt, D., Boronat, P., Aarmo Lund, B., de Esch, I.J.P., Danielson, U.H.

To be published.

Macromolecule Content

Total Structure Weight: 272.57 kDa
Atom Count: 16,973
Modelled Residue Count: 2,023
Deposited Residue Count: 2,370
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Acetylcholine-binding protein	A, B, C, D, E A, B, C, D, E, F, G, H, I, J	237	Lymnaea stagnalis	Mutation(s): 0
UniProt
Find proteins for P58154 (Lymnaea stagnalis) Explore P58154 Go to UniProtKB: P58154
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P58154
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain A Focus chain F Focus chain G
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
WD2 (Subject of Investigation/LOI) Query on WD2 Download Ideal Coordinates CCD File SDF format, chain P [auth E] SDF format, chain X [auth J] MOL2 format, chain P [auth E] MOL2 format, chain X [auth J] mmCIF format, chain P [auth E] mmCIF format, chain X [auth J]	P [auth E], X [auth J]	1-[4-(trifluoromethyl)pyridin-2-yl]piperazine C₁₀ H₁₂ F₃ N₃ GRKRSFCFKGOSNB-UHFFFAOYSA-N		Interactions Focus chain P [auth E] Focus chain X [auth J] Interactions & Density Focus chain P [auth E] Focus chain X [auth J]
NAG Query on NAG Download Ideal Coordinates CCD File SDF format, chain K [auth A] SDF format, chain S [auth F] SDF format, chain U [auth G] MOL2 format, chain K [auth A] MOL2 format, chain S [auth F] MOL2 format, chain U [auth G] mmCIF format, chain K [auth A] mmCIF format, chain S [auth F] mmCIF format, chain U [auth G]	K [auth A], S [auth F], U [auth G]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain K [auth A] Focus chain S [auth F] Focus chain U [auth G] Interactions & Density Focus chain K [auth A] Focus chain S [auth F] Focus chain U [auth G]
SO4 Query on SO4 Download Ideal Coordinates CCD File SDF format, chain O [auth D] SDF format, chain Q [auth E] SDF format, chain V [auth I] MOL2 format, chain O [auth D] MOL2 format, chain Q [auth E] MOL2 format, chain V [auth I] mmCIF format, chain O [auth D] mmCIF format, chain Q [auth E] mmCIF format, chain V [auth I]	O [auth D], Q [auth E], V [auth I]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain O [auth D] Focus chain Q [auth E] Focus chain V [auth I] Interactions & Density Focus chain O [auth D] Focus chain Q [auth E] Focus chain V [auth I]
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain L [auth A] SDF format, chain M [auth B] SDF format, chain N [auth C] SDF format, chain R [auth E] SDF format, chain T [auth F] SDF format, chain W [auth I] MOL2 format, chain L [auth A] MOL2 format, chain M [auth B] MOL2 format, chain N [auth C] MOL2 format, chain R [auth E] MOL2 format, chain T [auth F] MOL2 format, chain W [auth I] mmCIF format, chain L [auth A] mmCIF format, chain M [auth B] mmCIF format, chain N [auth C] mmCIF format, chain R [auth E] mmCIF format, chain T [auth F] mmCIF format, chain W [auth I]	L [auth A] M [auth B] N [auth C] R [auth E] T [auth F] L [auth A], M [auth B], N [auth C], R [auth E], T [auth F], W [auth I]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain L [auth A] Focus chain M [auth B] Focus chain N [auth C] Focus chain R [auth E] Focus chain T [auth F] Focus chain W [auth I] Interactions & Density Focus chain L [auth A] Focus chain M [auth B] Focus chain N [auth C] Focus chain R [auth E] Focus chain T [auth F] Focus chain W [auth I]