Literature DB >> 20645648

A stoichiometry driven universal spatial organization of backbones of folded proteins: are there Chargaff's rules for protein folding?

A Mittal1, B Jayaram, Sandhya Shenoy, Tejdeep Singh Bawa.   

Abstract

Protein folding is at least a six decade old problem, since the times of Pauling and Anfinsen. However, rules of protein folding remain elusive till date. In this work, rigorous analyses of several thousand crystal structures of folded proteins reveal a surprisingly simple unifying principle of backbone organization in protein folding. We find that protein folding is a direct consequence of a narrow band of stoichiometric occurrences of amino-acids in primary sequences, regardless of the size and the fold of a protein. We observe that "preferential interactions" between amino-acids do not drive protein folding, contrary to all prevalent views. We dedicate our discovery to the seminal contribution of Chargaff which was one of the major keys to elucidation of the stoichiometry-driven spatially organized double helical structure of DNA.

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Year:  2010        PMID: 20645648     DOI: 10.1080/07391102.2010.10507349

Source DB:  PubMed          Journal:  J Biomol Struct Dyn        ISSN: 0739-1102


  11 in total

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2.  Nucleic acids in disease and disorder: Understanding the language of life emerging from the 'ABC' of DNA.

Authors:  Manju Bansal; B Jayaram; Aditya Mittal
Journal:  J Biosci       Date:  2012-07       Impact factor: 1.826

3.  REMD and umbrella sampling simulations to probe the energy barrier of the folding pathways of engrailed homeodomain.

Authors:  Vinod Jani; Uddhavesh B Sonavane; Rajendra Joshi
Journal:  J Mol Model       Date:  2014-05-27       Impact factor: 1.810

4.  Tools for Characterizing Proteins: Circular Variance, Mutual Proximity, Chameleon Sequences, and Subsequence Propensities.

Authors:  Mihaly Mezei
Journal:  Methods Mol Biol       Date:  2022

5.  LoCo: a novel main chain scoring function for protein structure prediction based on local coordinates.

Authors:  Stewart E Moughon; Ram Samudrala
Journal:  BMC Bioinformatics       Date:  2011-09-15       Impact factor: 3.169

6.  A statistical anomaly indicates symbiotic origins of eukaryotic membranes.

Authors:  Suneyna Bansal; Aditya Mittal
Journal:  Mol Biol Cell       Date:  2015-01-28       Impact factor: 4.138

7.  Transmembrane Domain Lengths Serve as Signatures of Organismal Complexity and Viral Transport Mechanisms.

Authors:  Snigdha Singh; Aditya Mittal
Journal:  Sci Rep       Date:  2016-03-01       Impact factor: 4.379

8.  Enhancing protein backbone angle prediction by using simpler models of deep neural networks.

Authors:  Fereshteh Mataeimoghadam; M A Hakim Newton; Abdollah Dehzangi; Abdul Karim; B Jayaram; Shoba Ranganathan; Abdul Sattar
Journal:  Sci Rep       Date:  2020-11-10       Impact factor: 4.379

9.  Proceedings of the Indo-U.S. bilateral workshop on accelerating botanicals/biologics agent development research for cancer chemoprevention, treatment, and survival.

Authors:  Nagi B Kumar; Medha Dhurandhar; Bharat Aggarwal; Shrikant Anant; Kenyon Daniel; Gary Deng; Julie Djeu; Jinhui Dou; Ernest Hawk; B Jayaram; Libin Jia; Rajendra Joshi; Madhuri Kararala; Devarajan Karunagaran; Omer Kucuk; Lalit Kumar; Mokenge Malafa; G J Samathanam; Fazlul Sarkar; Maqsood Siddiqi; Rana P Singh; Anil Srivastava; Jeffrey D White
Journal:  Cancer Med       Date:  2013-02       Impact factor: 4.452

Review 10.  Genomes to hits in silico - a country path today, a highway tomorrow: a case study of chikungunya.

Authors:  Anjali Soni; Khushhali M Pandey; Pratima Ray; B Jayaram
Journal:  Curr Pharm Des       Date:  2013       Impact factor: 3.116

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