6QKK

Aplysia californica AChBP in complex with 2-Fluoro-(carbamoylpyridinyl)deschloroepibatidine analogue (1)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.199 
  • R-Value Observed: 0.200 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.3 of the entry. See complete history


Literature

Interactions between 2'-fluoro-(carbamoylpyridinyl)deschloroepibatidine analogues and acetylcholine-binding protein inform on potent antagonist activity against nicotinic receptors

Bueno, R.V.Davis, S.Dawson, A.Ondachi, P.W.Carroll, F.I.Hunter, W.N.

(2022) Acta Crystallogr D Biol Crystallogr 78


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Soluble acetylcholine receptor
A, B, C, D, E
A, B, C, D, E, F, G, H, I, J
249Aplysia californicaMutation(s): 0 
UniProt
Find proteins for Q8WSF8 (Aplysia californica)
Explore Q8WSF8 
Go to UniProtKB:  Q8WSF8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8WSF8
Glycosylation
Glycosylation Sites: 1
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 5 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
H92 (Subject of Investigation/LOI)
Query on H92

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DB [auth H]
EA [auth D]
IB [auth I]
K [auth A]
MA [auth E]
DB [auth H],
EA [auth D],
IB [auth I],
K [auth A],
MA [auth E],
R [auth B],
RA [auth F],
RB [auth J],
XA [auth G],
Y [auth C]
4-[5-[(1~{R},2~{R},4~{S})-7-azabicyclo[2.2.1]heptan-2-yl]-2-fluoranyl-pyridin-3-yl]benzamide
C18 H18 F N3 O
QGEMISSKSNIODJ-SQWLQELKSA-N
NAG
Query on NAG

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JA [auth D],
OB [auth I],
P [auth A],
WB [auth J]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
PO4
Query on PO4

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EB [auth H]
FA [auth D]
JB [auth I]
L [auth A]
NA [auth E]
EB [auth H],
FA [auth D],
JB [auth I],
L [auth A],
NA [auth E],
SA [auth F],
SB [auth J],
W [auth B],
YA [auth G],
Z [auth C]
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
OXL
Query on OXL

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T [auth B]OXALATE ION
C2 O4
MUBZPKHOEPUJKR-UHFFFAOYSA-L
EDO
Query on EDO

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AA [auth C]
AB [auth G]
BA [auth C]
BB [auth G]
CA [auth C]
AA [auth C],
AB [auth G],
BA [auth C],
BB [auth G],
CA [auth C],
CB [auth G],
DA [auth C],
FB [auth H],
GA [auth D],
GB [auth H],
HA [auth D],
HB [auth H],
IA [auth D],
KA [auth D],
KB [auth I],
LA [auth E],
LB [auth I],
M [auth A],
MB [auth I],
N [auth A],
NB [auth I],
O [auth A],
OA [auth E],
PA [auth E],
PB [auth I],
Q [auth A],
QA [auth E],
QB [auth J],
S [auth B],
TA [auth F],
TB [auth J],
U [auth B],
UA [auth F],
UB [auth J],
V [auth B],
VA [auth F],
VB [auth J],
WA [auth F],
X [auth B],
ZA [auth G]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.199 
  • R-Value Observed: 0.200 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 210.995α = 90
b = 131.583β = 102.77
c = 131.825γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-02-19
    Type: Initial release
  • Version 1.1: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Data collection, Derived calculations, Structure summary
  • Version 1.2: 2022-03-02
    Changes: Database references, Structure summary
  • Version 1.3: 2024-01-24
    Changes: Data collection, Refinement description