Abstract
We demonstrate the Binary Identified Contact Domain (BICD) method for predicting binding sites for proteins that starts with amino-acid sequences of several species, finds regions that are evolutionarily conserved, and weights regions by their local hydrophilicity. The measure of conservation takes transversions as significant but transitions as insignificant, in keeping with a theory of original singlet codes. The BICD method correctly predicts several known binding sites for the BRCA2 protein with PABL2 and RAD51 as well as the binding sites of the MDM2-P53 complex.
Keywords: Amino acids, binary code, binding sites, codons, conservation, evolution, genetic code, triplet.
Current Proteomics
Title:Conserved Regions can Predict Protein Binding Regions
Volume: 11 Issue: 1
Author(s): Raphael Finkel and Heinz Kohler
Affiliation:
Keywords: Amino acids, binary code, binding sites, codons, conservation, evolution, genetic code, triplet.
Abstract: We demonstrate the Binary Identified Contact Domain (BICD) method for predicting binding sites for proteins that starts with amino-acid sequences of several species, finds regions that are evolutionarily conserved, and weights regions by their local hydrophilicity. The measure of conservation takes transversions as significant but transitions as insignificant, in keeping with a theory of original singlet codes. The BICD method correctly predicts several known binding sites for the BRCA2 protein with PABL2 and RAD51 as well as the binding sites of the MDM2-P53 complex.
Export Options
About this article
Cite this article as:
Finkel Raphael and Kohler Heinz, Conserved Regions can Predict Protein Binding Regions, Current Proteomics 2014; 11 (1) . https://dx.doi.org/10.2174/1570164611666140412003128
DOI https://dx.doi.org/10.2174/1570164611666140412003128 |
Print ISSN 1570-1646 |
Publisher Name Bentham Science Publisher |
Online ISSN 1875-6247 |
Call for Papers in Thematic Issues
Mass spectrometry data acquisition and analysis for proteomics
The Thematic Issue on "Mass spectrometry data acquisition and analysis for proteomics" aims to explore the latest advancements and challenges in the field of proteomics through the lens of mass spectrometry. Proteomics, the large-scale study of proteins and their functions, plays a crucial role in understanding various biological processes and ...read more
Peptides: State-of-Art and Commercialisation Hurdles
The Editors of the Current Proteomics (CP) journal are highly privileged to welcome scientists to submit their scientific research and review articles to be considered for publication in the upcoming thematic issue. The topics should cover various aspects of peptides in regard to their synthetic methodologies, formulation approaches, pharmacological challenges, ...read more
- Author Guidelines
- Graphical Abstracts
- Fabricating and Stating False Information
- Research Misconduct
- Post Publication Discussions and Corrections
- Publishing Ethics and Rectitude
- Increase Visibility of Your Article
- Archiving Policies
- Peer Review Workflow
- Order Your Article Before Print
- Promote Your Article
- Manuscript Transfer Facility
- Editorial Policies
- Allegations from Whistleblowers
- Announcements
Related Articles
-
miRNAs Modulate the Dichotomy of Cisplatin Resistance or Sensitivity in Breast Cancer: An Update of Therapeutic Implications
Anti-Cancer Agents in Medicinal Chemistry Molecular Processes in Cancers and Cancer Chemotherapy
Current Chemical Biology Berberine Exhibits Antitumor Effects in Human Ovarian Cancer Cells
Anti-Cancer Agents in Medicinal Chemistry Exploring Single Nucleotide Polymorphisms in ITGAV for Gastric, Pancreatic and Liver Malignancies: An Approach Towards the Discovery of Biomarker
Combinatorial Chemistry & High Throughput Screening Development of <sup>18</sup>F-Labeled PET Probes for Imaging Cell Proliferation
Current Topics in Medicinal Chemistry Rapid Biosynthesis of Gold Nanoparticles Using Aqueous-ethanoic Leaf Extract of Heartleaf Moonseed: Characterization and Effect of pH on its Synthesis
Current Nanomaterials O-6-methylguanine-DNA Methyltransferase Inhibits Gastric Carcinoma Cell Migration and Invasion by Downregulation of Matrix Metalloproteinase 2
Anti-Cancer Agents in Medicinal Chemistry Multifaceted Role of Neuropilins in Cancer
Current Medicinal Chemistry A Brief Survey on Computational Approaches to Reveal Drug and Disease Associations
Current Drug Discovery Technologies miRNAs in Melanoma: Tumor Suppressors and Oncogenes with Prognostic Potential
Current Medicinal Chemistry Influence of Resveratrol on Sphingolipid Metabolism in Hepatocellular Carcinoma Cells in Lipid Overload State
Anti-Cancer Agents in Medicinal Chemistry Metallic Colloid Nanotechnology, Applications in Diagnosis and Therapeutics
Current Pharmaceutical Design The Role of Non-coding Genome in Cancer-associated Fibroblasts; Stateof- the-Art and Perspectives in Cancer Targeted Therapy
Current Drug Targets Recent Developments on 1,2,4-Triazole Nucleus in Anticancer Compounds: A Review
Anti-Cancer Agents in Medicinal Chemistry Curcumin Targets in Inflammation and Cancer
Endocrine, Metabolic & Immune Disorders - Drug Targets Targeting Proteasomes with Naturally Occurring Compounds in Cancer Treatment
Current Cancer Drug Targets Characterization of Solid Lipid Nanoparticles Containing Caffeic Acid and Determination of its Effects on MCF-7 Cells
Recent Patents on Anti-Cancer Drug Discovery Unique Coronary Artery Disease Differences in Women as Related to Revascularization
Current Medicinal Chemistry Drosophila Neoplasias: Clues Towards the Understanding of Human Cancers
Current Genomics PLGA Nanoparticles for Nose to Brain Delivery of Clonazepam: Formulation, Optimization by 32 Factorial Design, In Vitro and In Vivo Evaluation
Current Drug Delivery