5KAX

The structure of CTR107 protein bound to RHODAMINE 6G


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.179 
  • R-Value Work: 0.141 
  • R-Value Observed: 0.146 

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This is version 1.2 of the entry. See complete history


Literature

Solution Binding and Structural Analyses Reveal Potential Multidrug Resistance Functions for SAV2435 and CTR107 and Other GyrI-like Proteins.

Moreno, A.Froehlig, J.R.Bachas, S.Gunio, D.Alexander, T.Vanya, A.Wade, H.

(2016) Biochemistry 55: 4850-4863

  • DOI: 10.1021/acs.biochem.6b00651
  • Primary Citation of Related Structures:  
    5KAT, 5KAU, 5KAV, 5KAW, 5KAX, 5KCB

  • PubMed Abstract: 
  • Multidrug resistance (MDR) refers to the acquired ability of cells to tolerate a broad range of toxic compounds. One mechanism cells employ is to increase the level of expression of efflux pumps for the expulsion of xenobiotics. A key feature uniting efflux-related mechanisms is multidrug (MD) recognition, either by efflux pumps themselves or by their transcriptional regulators ...

    Multidrug resistance (MDR) refers to the acquired ability of cells to tolerate a broad range of toxic compounds. One mechanism cells employ is to increase the level of expression of efflux pumps for the expulsion of xenobiotics. A key feature uniting efflux-related mechanisms is multidrug (MD) recognition, either by efflux pumps themselves or by their transcriptional regulators. However, models describing MD binding by MDR effectors are incomplete, underscoring the importance of studies focused on the recognition elements and key motifs that dictate polyspecific binding. One such motif is the GyrI-like domain, which is found in several MDR proteins and is postulated to have been adapted for small-molecule binding and signaling. Here we report the solution binding properties and crystal structures of two proteins containing GyrI-like domains, SAV2435 and CTR107, bound to various ligands. Furthermore, we provide a comparison with deposited crystal structures of GyrI-like proteins, revealing key features of GyrI-like domains that not only support polyspecific binding but also are conserved among GyrI-like domains. Together, our studies suggest that GyrI-like domains perform evolutionarily conserved functions connected to multidrug binding and highlight the utility of these types of studies for elucidating mechanisms of MDR.


    Organizational Affiliation

    Department of Biophysics and Biophysical Chemistry, Johns Hopkins University School of Medicine , 725 North Wolfe Street, Baltimore, Maryland 21205, United States.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
CTR107 proteinA, B166Chlorobaculum tepidum TLSMutation(s): 0 
Gene Names: CT0179
UniProt
Find proteins for Q8KFZ1 (Chlorobaculum tepidum (strain ATCC 49652 / DSM 12025 / NBRC 103806 / TLS))
Explore Q8KFZ1 
Go to UniProtKB:  Q8KFZ1
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8KFZ1
Protein Feature View
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  • Reference Sequence
Small Molecules
Binding Affinity Annotations 
IDSourceBinding Affinity
RHQ Binding MOAD:  5KAX Kd: 780 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.00 Å
  • R-Value Free: 0.179 
  • R-Value Work: 0.141 
  • R-Value Observed: 0.146 
  • Space Group: P 65
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 71.958α = 90
b = 71.958β = 90
c = 146.87γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data

  • Deposited Date: 2016-06-02 
  • Released Date: 2016-08-24 
  • Deposition Author(s): Moreno, A., Wade, H.

Funding OrganizationLocationGrant Number
National Science Foundation (NSF, United States)United StatesMCB-0953430
Arnold and Mabel Beckman Young Investigator AwardUnited States--

Revision History  (Full details and data files)

  • Version 1.0: 2016-08-24
    Type: Initial release
  • Version 1.1: 2016-09-07
    Changes: Database references
  • Version 1.2: 2019-11-27
    Changes: Author supporting evidence, Database references, Derived calculations