8P1F

X-ray structure of acetylcholine-binding protein (AChBP) in complex with FL001909.

PDB DOI: https://doi.org/10.2210/pdb8P1F/pdb

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

Deposited: 2023-05-12 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: 0.255
R-Value Work: 0.225
R-Value Observed: 0.227

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: 544.74 kDa
Atom Count: 33,433
Modelled Residue Count: 4,039
Deposited Residue Count: 4,740
Unique protein chains: 1

Macromolecules

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(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, K, L, M, N, O, P, Q, R, S, T	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 C Focus chain E Focus chain F Focus chain I Focus chain J Focus chain K Focus chain L Focus chain M Focus chain N Focus chain O Focus chain Q Focus chain R Focus chain T
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAG Query on NAG Download Ideal Coordinates CCD File SDF format, chain AA [auth I] SDF format, chain BA [auth J] SDF format, chain CA [auth K] SDF format, chain DA [auth L] SDF format, chain EA [auth M] SDF format, chain FA [auth N] SDF format, chain GA [auth O] SDF format, chain HA [auth Q] SDF format, chain IA [auth R] SDF format, chain JA [auth T] SDF format, chain U [auth C] SDF format, chain W [auth E] SDF format, chain X [auth F] MOL2 format, chain AA [auth I] MOL2 format, chain BA [auth J] MOL2 format, chain CA [auth K] MOL2 format, chain DA [auth L] MOL2 format, chain EA [auth M] MOL2 format, chain FA [auth N] MOL2 format, chain GA [auth O] MOL2 format, chain HA [auth Q] MOL2 format, chain IA [auth R] MOL2 format, chain JA [auth T] MOL2 format, chain U [auth C] MOL2 format, chain W [auth E] MOL2 format, chain X [auth F] mmCIF format, chain AA [auth I] mmCIF format, chain BA [auth J] mmCIF format, chain CA [auth K] mmCIF format, chain DA [auth L] mmCIF format, chain EA [auth M] mmCIF format, chain FA [auth N] mmCIF format, chain GA [auth O] mmCIF format, chain HA [auth Q] mmCIF format, chain IA [auth R] mmCIF format, chain JA [auth T] mmCIF format, chain U [auth C] mmCIF format, chain W [auth E] mmCIF format, chain X [auth F]	AA [auth I] BA [auth J] CA [auth K] DA [auth L] EA [auth M] AA [auth I], BA [auth J], CA [auth K], DA [auth L], EA [auth M], FA [auth N], GA [auth O], HA [auth Q], IA [auth R], JA [auth T], U [auth C], W [auth E], X [auth F]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain AA [auth I] Focus chain BA [auth J] Focus chain CA [auth K] Focus chain DA [auth L] Focus chain EA [auth M] Focus chain FA [auth N] Focus chain GA [auth O] Focus chain HA [auth Q] Focus chain IA [auth R] Focus chain JA [auth T] Focus chain U [auth C] Focus chain W [auth E] Focus chain X [auth F] Interactions & Density Focus chain AA [auth I] Focus chain BA [auth J] Focus chain CA [auth K] Focus chain DA [auth L] Focus chain EA [auth M] Focus chain FA [auth N] Focus chain GA [auth O] Focus chain HA [auth Q] Focus chain IA [auth R] Focus chain JA [auth T] Focus chain U [auth C] Focus chain W [auth E] Focus chain X [auth F]
WCW (Subject of Investigation/LOI) Query on WCW Download Ideal Coordinates CCD File SDF format, chain V [auth E] SDF format, chain Y [auth G] SDF format, chain Z [auth I] MOL2 format, chain V [auth E] MOL2 format, chain Y [auth G] MOL2 format, chain Z [auth I] mmCIF format, chain V [auth E] mmCIF format, chain Y [auth G] mmCIF format, chain Z [auth I]	V [auth E], Y [auth G], Z [auth I]	4-azanyl-1-phenyl-piperidine-4-carboxylic acid C₁₂ H₁₆ N₂ O₂ FPGAOFXYANTSRQ-UHFFFAOYSA-N		Interactions Focus chain V [auth E] Focus chain Y [auth G] Focus chain Z [auth I] Interactions & Density Focus chain V [auth E] Focus chain Y [auth G] Focus chain Z [auth I]