3C30 | pdb_00003c30

Crystal structure of the Vibrio Cholerae LuxQ periplasmic domain (SeMet)

PDB DOI: https://doi.org/10.2210/pdb3C30/pdb

Classification: signaling protein, transferase
Organism(s): Vibrio cholerae
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2008-01-27 Released: 2009-02-03
Deposition Author(s): Slama, B., Hendrickson, W.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.80 Å
R-Value Free:
0.228 (Depositor), 0.229 (DCC)
R-Value Work:
0.201 (Depositor), 0.195 (DCC)
R-Value Observed:
0.201 (Depositor)

wwPDB Validation 3D Report Full Report

Validation slider image for 3C30

This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of the Vibrio Cholerae LuxQ periplasmic domain (SeMet)

Slama, B., Hendrickson, W.

To be published.

Macromolecule Content

Total Structure Weight: 30.52 kDa
Atom Count: 1,844
Modeled Residue Count: 219
Deposited Residue Count: 270
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Autoinducer 2 sensor kinase/phosphatase luxQ	A	270	Vibrio cholerae	Mutation(s): 0 Gene Names: luxQ EC: 2.7.13.3 (PDB Primary Data), 3.1.3 (PDB Primary Data)
UniProt
Find proteins for Q9KLK7 (Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)) Explore Q9KLK7 Go to UniProtKB: Q9KLK7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9KLK7
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MES Query on MES 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]	2-(N-MORPHOLINO)-ETHANESULFONIC ACID C₆ H₁₃ N O₄ S SXGZJKUKBWWHRA-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.80 Å
R-Value Free: 0.228 (Depositor), 0.229 (DCC)
R-Value Work: 0.201 (Depositor), 0.195 (DCC)
R-Value Observed: 0.201 (Depositor)

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.584	α = 90
b = 55.584	β = 90
c = 160.959	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
ADSC	data collection
DENZO	data reduction
SCALEPACK	data scaling
SHARP	phasing

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2009-02-03

Deposition Author(s):

Hendrickson, W.

Revision History (Full details and data files)

Version 1.0: 2009-02-03
Type: Initial release
Version 1.1: 2011-07-13
Changes: Version format compliance
Version 1.2: 2024-11-20
Changes: Data collection, Database references, Derived calculations, Structure summary

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.