7S7U

Crystal structure of iNicSnFR3a Fluorescent Nicotine Sensor with nicotine bound

PDB DOI: https://doi.org/10.2210/pdb7S7U/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., Shivange, A.V., 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: 2.95 Å
R-Value Free: 0.231
R-Value Work: 0.184
R-Value Observed: 0.186

wwPDB Validation 3D Report Full Report

This is version 1.5 of the entry. See complete history.

Literature

Correction: Fluorescence activation mechanism and imaging of drug permeation with new sensors for smoking-cessation ligands.

Nichols, A.L., Blumenfeld, Z., Fan, C., Luebbert, L., Blom, A.E.M., Cohen, B.N., Marvin, J.S., Borden, P.M., Kim, C.H., Muthusamy, A.K., Shivange, A.V., Knox, H.J., Campello, H.R., Wang, J.H., Dougherty, D.A., Looger, L.L., Gallagher, T., Rees, D.C., Lester, H.A.

(2022) Elife 11

PubMed: 36520038 Search on PubMedSearch on PubMed Central
DOI: https://doi.org/10.7554/eLife.85479
Primary Citation of Related Structures:
7S7T, 7S7U, 7S7V

Macromolecule Content

Total Structure Weight: 60.33 kDa
Atom Count: 4,068
Modelled Residue Count: 512
Deposited Residue Count: 537
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
iNicSnFR 3.0 Fluorescent Nicotine Sensor	A	537	Thermoanaerobacter sp. X513	Mutation(s): 0
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CRO Query on CRO	A	L-PEPTIDE LINKING	C₁₅ H₁₇ N₃ O₅		THR, TYR, GLY

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.95 Å
R-Value Free: 0.231
R-Value Work: 0.184
R-Value Observed: 0.186
Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 192.282	α = 90
b = 192.282	β = 90
c = 49.66	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
Aimless	data scaling
PHASER	phasing
Blu-Ice	data collection

Structure Validation

View Full Validation Report

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

Revision History (Full details and data files)

Version 1.0: 2021-10-13
Type: Initial release
Version 1.1: 2021-11-03
Changes: Structure summary
Version 1.2: 2022-04-27
Changes: Database references
Version 1.3: 2023-02-08
Changes: Database references
Version 1.4: 2023-10-25
Changes: Data collection, Refinement description
Version 1.5: 2023-11-15
Changes: Data collection

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.