5SUX | pdb_00005sux

Crystal Structure of ToxT from Vibrio Cholerae O395 bound to (E)-4-(8-methylnaphthalen-1-yl)but-3-enoic acid

PDB DOI: https://doi.org/10.2210/pdb5SUX/pdb

Classification: TRANSCRIPTION/TRANSCRIPTION INHIBITOR
Organism(s): Vibrio cholerae
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2016-08-04 Released: 2017-04-12
Deposition Author(s): Kull, F.J., Kelley, A.R.
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.230 (Depositor), 0.230 (DCC)
R-Value Work:
0.189 (Depositor), 0.192 (DCC)
R-Value Observed:
0.191 (Depositor)

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Ligand Structure Quality Assessment

This is version 1.4 of the entry. See complete history.

Literature

Crystal Structure of ToxT from Vibrio Cholerae O395 bound to (E)-4-(8-methylnaphthalen-1-yl)but-3-enoic acid

Kull, F.J., Kelley, A.R.

To be published.

Macromolecule Content

Total Structure Weight: 32.71 kDa
Atom Count: 2,311
Modeled Residue Count: 267
Deposited Residue Count: 276
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
AraC family transcriptional regulator	A	276	Vibrio cholerae	Mutation(s): 0 Gene Names: toxT, tcpN, EN12_04130, ERS013198_02000, ERS013199_00625, ERS013200_01425, ERS013202_00629, ERS013206_00617, ERS013207_01424
UniProt
Find proteins for Q7BGC0 (Vibrio cholerae) Explore Q7BGC0 Go to UniProtKB: Q7BGC0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q7BGC0
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
70H Query on 70H Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	(3E)-4-(8-methylnaphthalen-1-yl)but-3-enoic acid C₁₅ H₁₄ O₂ FALDQPGQWAZNKV-RUDMXATFSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]
MES Query on MES Download:Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth A] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] mmCIF format, chain C [auth A] mmCIF format, chain D [auth A]	C [auth A], D [auth A]	2-(N-MORPHOLINO)-ETHANESULFONIC ACID C₆ H₁₃ N O₄ S SXGZJKUKBWWHRA-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth A] Interactions & Density Focus chain C [auth A] Focus chain D [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.230 (Depositor), 0.230 (DCC)
R-Value Work: 0.189 (Depositor), 0.192 (DCC)
R-Value Observed: 0.191 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 40.52	α = 90
b = 80.96	β = 90
c = 84.49	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XSCALE	data scaling

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2017-04-12

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	AI072661

Revision History (Full details and data files)

Version 1.0: 2017-04-12
Type: Initial release
Version 1.1: 2017-08-09
Changes: Database references
Version 1.2: 2017-09-20
Changes: Author supporting evidence
Version 1.3: 2019-12-11
Changes: Author supporting evidence
Version 1.4: 2024-03-06
Changes: Data collection, Database references

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