The ligand binding domain of Mlp37 with arginine

Experimental Data Snapshot

  • Resolution: 2.35 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.185 
  • R-Value Observed: 0.190 

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Structural basis of the binding affinity of chemoreceptors Mlp24p and Mlp37p for various amino acids.

Takahashi, Y.Nishiyama, S.I.Kawagishi, I.Imada, K.

(2020) Biochem Biophys Res Commun 523: 233-238

  • DOI: https://doi.org/10.1016/j.bbrc.2019.12.055
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Environmental sensing is crucial for bacterial survival and pathogenicity. Bacteria sense environmental chemicals using chemoreceptor proteins, such as Methyl-accepting Chemotaxis Proteins (MCPs). Vibrio cholerae, the etiological agent of cholera, has at least 44 chemoreceptor proteins homologous to MCP-Like Proteins (MLPs). Mlp24 and Mlp37 are dCACHE type chemoreceptors that senses various amino acids. Mlp24 is important for cholera toxin production, whereas Mlp37 is related to biofilm formation. The periplasmic ligand binding regions of Mlp24 and Mlp37 (Mlp24p and Mlp37p, respectively) share similar amino acid sequences, tertiary and quaternary structures, and a common mechanism for the ligand amino acid backbone recognition. However, Mlp37p recognizes various l-amino acids and taurine with similar affinity whereas Mlp24p shows different binding affinities for various l-amino acids and does not bind taurine. Here we solved the crystal structure of Mlp37p in complex with l-arginine and compared it with previously determined structures of Mlp37p, Mlp24p and their ligand complexes. We found that Mlp37p changes the conformation of the loop that forms the upper wall of the ligand binding pocket according to size and shape of the ligand, and thereby show similar affinity for various ligands.

  • Organizational Affiliation

    Graduate School of Science, Osaka University, 1-1 Machikaneyama, Toyonaka, Osaka, 560-0043, Japan.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Methyl-accepting chemotaxis (MCP) signaling domain protein
A, B
257Vibrio choleraeMutation(s): 0 
Gene Names: CGT79_04785DN30_191
Find proteins for Q9KL26 (Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961))
Explore Q9KL26 
Go to UniProtKB:  Q9KL26
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9KL26
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.35 Å
  • R-Value Free: 0.244 
  • R-Value Work: 0.185 
  • R-Value Observed: 0.190 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 49.593α = 90
b = 100.482β = 90
c = 106.806γ = 90
Software Package:
Software NamePurpose
MOSFLMdata reduction
Aimlessdata scaling

Structure Validation

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Ligand Structure Quality Assessment 

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Japan Society for the Promotion of ScienceJapan15H02386
Ministry of Education, Culture, Sports, Science and Technology (Japan)Japan23115008
Japan Society for the Promotion of ScienceJapan17J02169
Japan Society for the Promotion of ScienceJapan17KT0026

Revision History  (Full details and data files)

  • Version 1.0: 2019-11-06
    Type: Initial release
  • Version 1.1: 2020-05-20
    Changes: Database references
  • Version 1.2: 2023-11-22
    Changes: Data collection, Database references, Refinement description