Literature DB >> 18780815

Amino acid composition and protein dimension.

Oliviero Carugo1.   

Abstract

There is indirect evidence that the amino acid composition of proteins depends on their dimension. The amino acid composition of a nonredundant set of about 550,000 proteins was determined and it was observed that, in the range of 50-200 residues, the percentage of occurrence of most of the residue types significantly depends on protein dimension. This result should prove useful in analyzing protein sequences and genomics.

Mesh：

Substances：

Year:  2008        PMID： 18780815      PMCID： PMC2590925          DOI： 10.1110/ps.037762.108

Source DB:  PubMed          Journal:  Protein Sci        ISSN： 0961-8368            Impact factor:   6.725


  13 in total

1.  A LIMITING LAW RELATING THE SIZE AND SHAPE OF PROTEIN MOLECULES TO THEIR COMPOSITION.

Authors:  H F FISHER
Journal:  Proc Natl Acad Sci U S A       Date:  1964-06       Impact factor: 11.205

2.  Prediction of unfolded segments in a protein sequence based on amino acid composition.

Authors:  Karen Coeytaux; Anne Poupon
Journal:  Bioinformatics       Date:  2005-01-18       Impact factor: 6.937

3.  Prediction of protein crystallization using collocation of amino acid pairs.

Authors:  Ke Chen; Lukasz Kurgan; Mandana Rahbari
Journal:  Biochem Biophys Res Commun       Date:  2007-02-15       Impact factor: 3.575

4.  The number of turns in globular proteins.

Authors:  G D Rose; D B Wetlaufer
Journal:  Nature       Date:  1977-08-25       Impact factor: 49.962

5.  Using optimized evidence-theoretic K-nearest neighbor classifier and pseudo-amino acid composition to predict membrane protein types.

Authors:  Hongbin Shen; Kuo-Chen Chou
Journal:  Biochem Biophys Res Commun       Date:  2005-08-19       Impact factor: 3.575

6.  SCOP: a structural classification of proteins database for the investigation of sequences and structures.

Authors:  A G Murzin; S E Brenner; T Hubbard; C Chothia
Journal:  J Mol Biol       Date:  1995-04-07       Impact factor: 5.469

7.  The amino acid compositions of proteins are correlated with their molecular sizes.

Authors:  A Cornish-Bowden
Journal:  Biochem J       Date:  1983-07-01       Impact factor: 3.857

8.  Using pseudo-amino acid composition and support vector machine to predict protein structural class.

Authors:  Chao Chen; Yuan-Xin Tian; Xiao-Yong Zou; Pei-Xiang Cai; Jin-Yuan Mo
Journal:  J Theor Biol       Date:  2006-07-01       Impact factor: 2.691

9.  Better prediction of protein contact number using a support vector regression analysis of amino acid sequence.

Authors:  Zheng Yuan
Journal:  BMC Bioinformatics       Date:  2005-10-13       Impact factor: 3.169

10.  The Universal Protein Resource (UniProt).

Authors: 
Journal:  Nucleic Acids Res       Date:  2006-11-16       Impact factor: 16.971
View more
  14 in total

1.  Recognition of the HIV capsid by the TRIM5α restriction factor is mediated by a subset of pre-existing conformations of the TRIM5α SPRY domain.

Authors:  Dmytro B Kovalskyy; Dmitri N Ivanov
Journal:  Biochemistry       Date:  2014-02-24       Impact factor: 3.162

2.  Buried chloride stereochemistry in the Protein Data Bank.

Authors:  Oliviero Carugo
Journal:  BMC Struct Biol       Date:  2014-09-23

3.  19F Magic Angle Spinning NMR Spectroscopy and Density Functional Theory Calculations of Fluorosubstituted Tryptophans: Integrating Experiment and Theory for Accurate Determination of Chemical Shift Tensors.

Authors:  Manman Lu; Sucharita Sarkar; Mingzhang Wang; Jodi Kraus; Matthew Fritz; Caitlin M Quinn; Shi Bai; Sean T Holmes; Cecil Dybowski; Glenn P A Yap; Jochem Struppe; Ivan V Sergeyev; Werner Maas; Angela M Gronenborn; Tatyana Polenova
Journal:  J Phys Chem B       Date:  2018-05-30       Impact factor: 2.991

Review 4.  Biomolecular imaging with coherent nonlinear vibrational microscopy.

Authors:  Chao-Yu Chung; Eric O Potma
Journal:  Annu Rev Phys Chem       Date:  2012-12-05       Impact factor: 12.703

5.  Towards an understanding of the role of intrinsic protein disorder on plant adaptation to environmental challenges.

Authors:  Jesús Alejandro Zamora-Briseño; Alejandro Pereira-Santana; Sandi Julissa Reyes-Hernández; Daniel Cerqueda-García; Enrique Castaño; Luis Carlos Rodríguez-Zapata
Journal:  Cell Stress Chaperones       Date:  2020-09-09       Impact factor: 3.667

6.  Protein sequence redundancy reduction: comparison of various method.

Authors:  Kresimir Sikic; Oliviero Carugo
Journal:  Bioinformation       Date:  2010-11-27

7.  Frequency of dipeptides and antidipeptides.

Authors:  Oliviero Carugo
Journal:  Comput Struct Biotechnol J       Date:  2013-08-14       Impact factor: 7.271

8.  Crystal structure of a Thermus aquaticus diversity-generating retroelement variable protein.

Authors:  Sumit Handa; Kharissa L Shaw; Partho Ghosh
Journal:  PLoS One       Date:  2019-01-10       Impact factor: 3.240

9.  Enhancing Robustness of Sortase A by Loop Engineering and Backbone Cyclization.

Authors:  Zhi Zou; Diana M Mate; Maximilian Nöth; Felix Jakob; Ulrich Schwaneberg
Journal:  Chemistry       Date:  2020-08-18       Impact factor: 5.236

10.  Bioprocess monitoring: minimizing sample matrix effects for total protein quantification with bicinchoninic acid assay.

Authors:  Wieland N Reichelt; Daniel Waldschitz; Christoph Herwig; Lukas Neutsch
Journal:  J Ind Microbiol Biotechnol       Date:  2016-06-17       Impact factor: 3.346
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.