6QQO

Aplysia californica AChBP in complex with 2-Fluoro-(carbamoylpyridinyl)deschloroepibatidine analogue (3)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.212 
  • R-Value Work: 0.193 
  • R-Value Observed: 0.194 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


Ligand Structure Quality Assessment 


This is version 1.4 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 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
JC8 (Subject of Investigation/LOI)
Query on JC8

Download Ideal Coordinates CCD File 
BA [auth C]
CC [auth J]
HB [auth G]
JA [auth D]
K [auth A]
BA [auth C],
CC [auth J],
HB [auth G],
JA [auth D],
K [auth A],
MB [auth H],
R [auth B],
SA [auth E],
UB [auth I],
ZA [auth F]
6-[5-[(1~{R},2~{R},4~{S})-7-azabicyclo[2.2.1]heptan-2-yl]-2-fluoranyl-pyridin-3-yl]pyridine-3-carboxamide
C17 H17 F N4 O
OTLVFRDBKUDQLP-YWPYICTPSA-N
NAG
Query on NAG

Download Ideal Coordinates CCD File 
FB [auth F]
HA [auth C]
IC [auth J]
KB [auth G]
OA [auth D]
FB [auth F],
HA [auth C],
IC [auth J],
KB [auth G],
OA [auth D],
P [auth A],
SB [auth H],
YA [auth E],
Z [auth B],
ZB [auth I]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
PO4
Query on PO4

Download Ideal Coordinates CCD File 
AB [auth F]
BB [auth F]
CA [auth C]
DA [auth C]
DC [auth J]
AB [auth F],
BB [auth F],
CA [auth C],
DA [auth C],
DC [auth J],
EC [auth J],
IB [auth G],
KA [auth D],
L [auth A],
NB [auth H],
S [auth B],
T [auth B],
TA [auth E],
VB [auth I],
WB [auth I]
PHOSPHATE ION
O4 P
NBIIXXVUZAFLBC-UHFFFAOYSA-K
EDO
Query on EDO

Download Ideal Coordinates CCD File 
AA [auth B]
AC [auth I]
BC [auth J]
CB [auth F]
DB [auth F]
AA [auth B],
AC [auth I],
BC [auth J],
CB [auth F],
DB [auth F],
EA [auth C],
EB [auth F],
FA [auth C],
FC [auth J],
GA [auth C],
GB [auth F],
GC [auth J],
HC [auth J],
IA [auth C],
JB [auth G],
LA [auth D],
LB [auth G],
M [auth A],
MA [auth D],
N [auth A],
NA [auth D],
O [auth A],
OB [auth H],
PA [auth D],
PB [auth H],
Q [auth A],
QA [auth E],
QB [auth H],
RA [auth E],
RB [auth H],
TB [auth H],
U [auth B],
UA [auth E],
V [auth B],
VA [auth E],
W [auth B],
WA [auth E],
X [auth B],
XA [auth E],
XB [auth I],
Y [auth B],
YB [auth I]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.212 
  • R-Value Work: 0.193 
  • R-Value Observed: 0.194 
  • Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 209.826α = 90
b = 134.06β = 102.56
c = 131.719γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Ligand Structure Quality Assessment 


Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-03-18
    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
  • Version 1.4: 2024-10-23
    Changes: Structure summary