Proteins as sponges: A statistical journey along protein structure organization principles (716 views)
J Chem Inf Model (ISSN: 1549-9596), 2012 Feb 27; 52(2): 474-482.
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Paper type: Journal Article,
Impact factor: 4.304, 5-year impact factor: 4.067
Url: http://www.scopus.com/inward/record.url?eid=2-s2.0-84857585657&partnerID=40&md5=b8f43eba7c73286ea4b1399c68f64af7
Keywords: Complex Networks, Fractal Analysis, Fractal-Shape, Hydrophobic Core, Hydrophobic Effect, Large Database, Order Parameter, Organizational Principles, Protein Data, Protein Structures, Hydrophobicity, Article, Chemical Phenomena, Chemistry, Protein Conformation, Protein Database, Hydrophobic And Hydrophilic Interactions,
Affiliations:
*** IBB - CNR ***
Università Campus Biomedico, via Alvaro del Portillo 21, 00128 Rome, Italy
CNR-Institute of Systems Analysis and Computer Science (IASI), BioMathLab, viale Manzoni 30, 00185 Rome, Italy
Department of Environment and Health, Istituto Superiore di Sanità, Viale Regina Elena 299, 00161 Rome, Italy
Universit Campus Biomedico, via Alvaro del Portillo 21, 00128 Rome, Italy
References:
Not available.
J Chem Inf Model (ISSN: 1549-9596), 2012 Feb 27; 52(2): 474-482.
Export to BibTeX Export to EndNote
Paper type: Journal Article,
Impact factor: 4.304, 5-year impact factor: 4.067
Url: http://www.scopus.com/inward/record.url?eid=2-s2.0-84857585657&partnerID=40&md5=b8f43eba7c73286ea4b1399c68f64af7
Keywords: Complex Networks, Fractal Analysis, Fractal-Shape, Hydrophobic Core, Hydrophobic Effect, Large Database, Order Parameter, Organizational Principles, Protein Data, Protein Structures, Hydrophobicity, Article, Chemical Phenomena, Chemistry, Protein Conformation, Protein Database, Hydrophobic And Hydrophilic Interactions,
Affiliations:
*** IBB - CNR ***
Università Campus Biomedico, via Alvaro del Portillo 21, 00128 Rome, Italy
CNR-Institute of Systems Analysis and Computer Science (IASI), BioMathLab, viale Manzoni 30, 00185 Rome, Italy
Department of Environment and Health, Istituto Superiore di Sanità, Viale Regina Elena 299, 00161 Rome, Italy
Universit Campus Biomedico, via Alvaro del Portillo 21, 00128 Rome, Italy
References:
Not available.
Proteins as sponges: A statistical journey along protein structure organization principles
The analysis of a large database of protein structures by means of topological and shape indexes inspired by complex network and fractal analysis shed light on some organizational principles of proteins. Proteins appear much more similar to "fractal" sponges than to closely packed spheres, casting doubts on the tenability of the hydrophobic core concept. Principal component analysis highlighted three main order parameters shaping the protein universe: (1) "size", with the consequent generation of progressively less dense and more empty structures at an increasing number of residues, (2) "microscopic structuring", linked to the existence of a spectrum going from the prevalence of heterologous (different hydrophobicity) to the prevalence of homologous (similar hydrophobicity) contacts, and (3) "fractal shape", an organizing protein data set along a continuum going from approximately linear to very intermingled structures. Perhaps the time has come for seriously taking into consideration the real relevance of time-honored principles like the hydrophobic core and hydrophobic effect. © 2012 American Chemical Society.
The analysis of a large database of protein structures by means of topological and shape indexes inspired by complex network and fractal analysis shed light on some organizational principles of proteins. Proteins appear much more similar to "fractal" sponges than to closely packed spheres, casting doubts on the tenability of the hydrophobic core concept. Principal component analysis highlighted three main order parameters shaping the protein universe: (1) "size", with the consequent generation of progressively less dense and more empty structures at an increasing number of residues, (2) "microscopic structuring", linked to the existence of a spectrum going from the prevalence of heterologous (different hydrophobicity) to the prevalence of homologous (similar hydrophobicity) contacts, and (3) "fractal shape", an organizing protein data set along a continuum going from approximately linear to very intermingled structures. Perhaps the time has come for seriously taking into consideration the real relevance of time-honored principles like the hydrophobic core and hydrophobic effect. © 2012 American Chemical Society.
Proteins as sponges: A statistical journey along protein structure organization principles
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Proteins as sponges: A statistical journey along protein structure organization principles
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* Structural insights on nanoparticles containing gadolinium complexes as potential theranostic (819 views)
Colloid Polym Sci (ISSN: 0303-402x), 2014 May; 292(5): 1121-1127.
Impact Factor: 1.865
View Export to BibTeX Export to EndNote
Roviello GN, Roviello GN, Musumeci D, Capasso D, Di Gaetano S, Costanzo M, Pedone C
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Impact Factor: 3.84
View Export to BibTeX Export to EndNote
Sciacca MFM, Carbone V, Pappalardo M, Milardi D, La Rosa C, Grasso DM
* Interaction of human amylin with phosphatidylcholine and phosphatidylserine membranes (556 views)
Mol Cryst Liq Cryst (ISSN: 1542-1406), 2009; 500: 73-81.
Impact Factor: 0.451
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3 Records (3 excluding Abstracts).
Total impact factor: 6.156 (6.156 excluding Abstracts).
Total 5 year impact factor: 6.392 (6.392 excluding Abstracts).
Total impact factor: 6.156 (6.156 excluding Abstracts).
Total 5 year impact factor: 6.392 (6.392 excluding Abstracts).
716 views. Last view on Wednesday 09 April 2025, 6:12:03
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