CBD Finder

Protein Analysis Tool

Tool to find cholesterol binding motifs (CRAC, CARC, and GXXXG motifs) in protein sequences

Publication DOI:10.1080/07391102.2024.2446663

Search Cholesterol Binding Domains

Enter a protein sequence to identify CRAC, CARC, and GXXXG motifs

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UniProtIDProteinsGenesSeqCRACCARCGXXXGAction

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UniProtIDProteinsGenesSeqCRACCARCGXXXGAction

Tool to find cholesterol binding motifs (CRAC, CARC, or GXXXG motifs) in a protein

Based on the work of Fantini and Barrantes

The Cholesterol Binding Domain (CBD) Finder is a specialized bioinformatics tool designed to identify cholesterol binding motifs in protein sequences. This tool is essential for researchers studying membrane proteins and their interactions with cholesterol, a critical component in cellular membranes.

The tool identifies three types of cholesterol-binding motifs:

CRAC Motif

Cholesterol Recognition/interaction Amino acid Consensus sequence

-L/V-(X)(1-5)-Y-(X)(1-5)-R/K-

CARC Motif

Inverted CRAC sequence for cholesterol binding

-K/R-(X)(1-5)-Y/F-(X)(1-5)-L/V-

GXXXG Motif

Glycine zipper motif involved in helix-helix interactions

-G-X-X-X-G-

How It Works

1

Input Protein Sequence

Paste your protein sequence in FASTA format or raw sequence

2

Pattern Matching

The tool scans the sequence for CRAC, CARC, and GXXXG patterns

3

Results Display

View identified motifs with their positions and sequences

Citation

If you use the tool please consider citing the following paper

Sahu, V. K., Lokhande, K. B., Swamy, V. K., Basu, S., & Ranjan, A. (2025). Role of the transmembrane polar residues on CD151 in cholesterol binding. In Journal of Biomolecular Structure and Dynamics (pp. 1–13). Informa UK Limited. https://doi.org/10.1080/07391102.2024.2446663

References

Key publications on cholesterol binding domains

Fantini et al.

How cholesterol interacts with membrane proteins: an exploration of cholesterol-binding sites including CRAC, CARC, and tilted domains

https://www.doi.org/10.3389/fphys.2013.00031

Scala et al.

Relevance of CARC and CRAC Cholesterol-Recognition Motifs in the Nicotinic Acetylcholine Receptor and Other Membrane-Bound Receptors

https://www.doi.org/10.1016/bs.ctm.2017.05.001

Ranjan et al.

Role of the transmembrane polar residues on CD151 in cholesterol binding

https://www.doi.org/10.1080/07391102.2024.2446663

Applications

  • •Identifying potential cholesterol binding sites in membrane proteins
  • •Studying protein-lipid interactions in cellular membranes
  • •Drug discovery targeting cholesterol-protein interactions
  • •Understanding membrane protein structure and function
  • •Analyzing transmembrane domain organization