6SGV | pdb_00006sgv

Crystal structure of AcAChBP in complex with hosieine

PDB DOI: https://doi.org/10.2210/pdb6SGV/pdb

Classification: SIGNALING PROTEIN
Organism(s): Aplysia californica
Expression System: Spodoptera frugiperda
Mutation(s): No

Deposited: 2019-08-05 Released: 2020-08-26
Deposition Author(s): Hunter, W.N., Dawson, A., Parker, H.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free:
0.257 (Depositor), 0.261 (DCC)
R-Value Work:
0.232 (Depositor), 0.238 (DCC)
R-Value Observed:
0.234 (Depositor)

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.2 of the entry. See complete history.

Literature

Delineating the activity of the potent nicotinic acetylcholine receptor agonists (+)-anatoxin-a and (-)-hosieine-A

Parker, H.P., Dawson, A., Jones, M.J., Yan, R., Ouyang, J., Hong, R., Hunter, W.N.

(2022) Acta Crystallogr F Struct Biol Commun

DOI: https://doi.org/10.1107/S2053230X22007762

Macromolecule Content

Total Structure Weight: 286.43 kDa
Atom Count: 17,086
Modeled Residue Count: 2,051
Deposited Residue Count: 2,490
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Soluble acetylcholine receptor	A, B, C, D, E A, B, C, D, E, F, G, H, I, J	249	Aplysia californica	Mutation(s): 0
UniProt
Find proteins for Q8WSF8 (Aplysia californica) Explore Q8WSF8 Go to UniProtKB: Q8WSF8
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8WSF8
Glycosylation
Glycosylation Sites: 1	Glycosylation Focus chain A Focus chain C Focus chain E
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
LDQ (Subject of Investigation/LOI) Query on LDQ Download:Ideal Coordinates CCD File SDF format, chain X [auth J] SDF format, chain W [auth I] SDF format, chain U [auth H] SDF format, chain T [auth G] SDF format, chain S [auth F] SDF format, chain R [auth E] SDF format, chain P [auth D] SDF format, chain O [auth C] SDF format, chain M [auth B] SDF format, chain L [auth A] MOL2 format, chain X [auth J] MOL2 format, chain W [auth I] MOL2 format, chain U [auth H] MOL2 format, chain T [auth G] MOL2 format, chain S [auth F] MOL2 format, chain R [auth E] MOL2 format, chain P [auth D] MOL2 format, chain O [auth C] MOL2 format, chain M [auth B] MOL2 format, chain L [auth A] mmCIF format, chain X [auth J] mmCIF format, chain W [auth I] mmCIF format, chain U [auth H] mmCIF format, chain T [auth G] mmCIF format, chain S [auth F] mmCIF format, chain R [auth E] mmCIF format, chain P [auth D] mmCIF format, chain O [auth C] mmCIF format, chain M [auth B] mmCIF format, chain L [auth A]	L [auth A] M [auth B] O [auth C] P [auth D] R [auth E] L [auth A], M [auth B], O [auth C], P [auth D], R [auth E], S [auth F], T [auth G], U [auth H], W [auth I], X [auth J]	Hosieine C₁₅ H₂₀ N₂ O PDPSDBUFNKLMBE-FPVNZWGXSA-N		Interactions Focus chain L [auth A] Focus chain M [auth B] Focus chain O [auth C] Focus chain P [auth D] Focus chain R [auth E] Focus chain S [auth F] Focus chain T [auth G] Focus chain U [auth H] Focus chain W [auth I] Focus chain X [auth J] Interactions & Density Focus chain L [auth A] Focus chain M [auth B] Focus chain O [auth C] Focus chain P [auth D] Focus chain R [auth E] Focus chain S [auth F] Focus chain T [auth G] Focus chain U [auth H] Focus chain W [auth I] Focus chain X [auth J]
NAG Query on NAG Download:Ideal Coordinates CCD File SDF format, chain Q [auth E] SDF format, chain N [auth C] SDF format, chain K [auth A] MOL2 format, chain Q [auth E] MOL2 format, chain N [auth C] MOL2 format, chain K [auth A] mmCIF format, chain Q [auth E] mmCIF format, chain N [auth C] mmCIF format, chain K [auth A]	K [auth A], N [auth C], Q [auth E]	2-acetamido-2-deoxy-beta-D-glucopyranose C₈ H₁₅ N O₆ OVRNDRQMDRJTHS-FMDGEEDCSA-N		Interactions Focus chain K [auth A] Focus chain N [auth C] Focus chain Q [auth E] Interactions & Density Focus chain K [auth A] Focus chain N [auth C] Focus chain Q [auth E]
ACT Query on ACT Download:Ideal Coordinates CCD File SDF format, chain V [auth I] MOL2 format, chain V [auth I] mmCIF format, chain V [auth I]	V [auth I]	ACETATE ION C₂ H₃ O₂ QTBSBXVTEAMEQO-UHFFFAOYSA-M		Interactions Focus chain V [auth I] Interactions & Density Focus chain V [auth I]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free: 0.257 (Depositor), 0.261 (DCC)
R-Value Work: 0.232 (Depositor), 0.238 (DCC)
R-Value Observed: 0.234 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 209.802	α = 90
b = 133.414	β = 102.51
c = 131.155	γ = 90

Software Package:

Software Name	Purpose
XDS	data reduction
Aimless	data scaling
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

Deposition Data

Released Date: 2020-08-26

Deposition Author(s):

Hunter, W.N.

Dawson, A.

Parker, H.

Revision History (Full details and data files)

Version 1.0: 2020-08-26
Type: Initial release
Version 1.1: 2022-09-07
Changes: Database references
Version 1.2: 2024-11-13
Changes: Data collection, Refinement description, Structure summary