7S7X

Crystal structure of iCytSnFR Cytisine Sensor precursor binding protein with varenicline bound

PDB DOI: https://doi.org/10.2210/pdb7S7X/pdb

Classification: FLUORESCENT PROTEIN
Organism(s): Thermoanaerobacter sp. X513
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2021-09-17 Released: 2021-10-13
Deposition Author(s): Fan, C., Nichols, N.L., Luebbert, L., Looger, L.L., Lester, H.A., Rees, D.C.
Funding Organization(s): Howard Hughes Medical Institute (HHMI), National Institutes of Health/National Institute on Drug Abuse (NIH/NIDA), Tobacco-Related Disease Research Program (TRDRP)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.208
R-Value Work: 0.170
R-Value Observed: 0.171

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

Structure, Function, and Application of Bacterial ABC Transporters

Fan, C.

(2020) Ph D Thesis,california Institute Of Technology

DOI: https://doi.org/10.7907/5t65-0047

Macromolecule Content

Total Structure Weight: 100.67 kDa
Atom Count: 7,627
Modelled Residue Count: 834
Deposited Residue Count: 879
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
iNicSnFR 4.0 Fluorescent Nicotine Sensor precursor binding protein	A, B, C	293	Thermoanaerobacter sp. X513	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
QMR (Subject of Investigation/LOI) Query on QMR Download Ideal Coordinates CCD File SDF format, chain I [auth C] SDF format, chain D [auth A] SDF format, chain F [auth B] MOL2 format, chain I [auth C] MOL2 format, chain D [auth A] MOL2 format, chain F [auth B] mmCIF format, chain I [auth C] mmCIF format, chain D [auth A] mmCIF format, chain F [auth B]	D [auth A], F [auth B], I [auth C]	VARENICLINE C₁₃ H₁₃ N₃ JQSHBVHOMNKWFT-DTORHVGOSA-N		Interactions Focus chain D [auth A] Focus chain F [auth B] Focus chain I [auth C] Interactions & Density Focus chain D [auth A] Focus chain F [auth B] Focus chain I [auth C]
NHE Query on NHE Download Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain G [auth B] SDF format, chain J [auth C] MOL2 format, chain E [auth A] MOL2 format, chain G [auth B] MOL2 format, chain J [auth C] mmCIF format, chain E [auth A] mmCIF format, chain G [auth B] mmCIF format, chain J [auth C]	E [auth A], G [auth B], J [auth C]	2-[N-CYCLOHEXYLAMINO]ETHANE SULFONIC ACID C₈ H₁₇ N O₃ S MKWKNSIESPFAQN-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain G [auth B] Focus chain J [auth C] Interactions & Density Focus chain E [auth A] Focus chain G [auth B] Focus chain J [auth C]
PEG Query on PEG Download Ideal Coordinates CCD File SDF format, chain H [auth B] MOL2 format, chain H [auth B] mmCIF format, chain H [auth B]	H [auth B]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain H [auth B] Interactions & Density Focus chain H [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.70 Å
R-Value Free: 0.208
R-Value Work: 0.170
R-Value Observed: 0.171
Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.471	α = 90
b = 99.91	β = 90
c = 135.919	γ = 90

Software Package:

Software Name	Purpose
PDB_EXTRACT	data extraction
PHENIX	refinement
PHASER	phasing
Aimless	data scaling
XDS	data reduction

Structure Validation

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Ligand Structure Quality Assessment

Entry History & Funding Information

Deposition Data

Released Date: 2021-10-13

Deposition Author(s):

Funding Organization	Location	Grant Number
Howard Hughes Medical Institute (HHMI)	United States	--
National Institutes of Health/National Institute on Drug Abuse (NIH/NIDA)	United States	DA037161
National Institutes of Health/National Institute on Drug Abuse (NIH/NIDA)	United States	DA043829
National Institutes of Health/National Institute on Drug Abuse (NIH/NIDA)	United States	GM123582
Tobacco-Related Disease Research Program (TRDRP)	United States	23XT-0007
Tobacco-Related Disease Research Program (TRDRP)	United States	27IP-0057