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Results 1 - 10
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5,172
Knowledge-based protein secondary structure assignment
- Proteins
, 1995
"... ABSTRACT We have developed an auto-matic algorithm STRIDE for protein secondary structure assignment from atomic coordinates based on the combined use of hydrogen bond energy and statistically derived backbone tor-sional angle information. Parameters of the pattern recognition procedure were optimiz ..."
Abstract
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Cited by 324 (2 self)
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ABSTRACT We have developed an auto-matic algorithm STRIDE for protein secondary structure assignment from atomic coordinates based on the combined use of hydrogen bond energy and statistically derived backbone tor-sional angle information. Parameters of the pattern recognition procedure were
Protein secondary structure assignment through Voronoi tessellation
- Proteins
, 2004
"... ABSTRACT We present a new automatic algorithm, ..."
Protein Secondary Structure Assignment Through Voronoı̈
"... ABSTRACT We present a new automatic algo- ..."
Protein Secondary Structure Prediction . . .
- JO MOL B/O/. (1999) 292, 195-202 .GG
, 1999
"... ..."
Dictionary of protein secondary structure: pattern recognition of hydrogen-bonded and geometrical features
, 1983
"... For a successful analysis of the relation between amino acid sequence and protein structure, an unambiguous and physically meaningful definition of secondary structure is essential. We have developed a set of simple and physically motivated criteria for secondary structure, programmed as a pattern-r ..."
Abstract
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Cited by 2096 (5 self)
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For a successful analysis of the relation between amino acid sequence and protein structure, an unambiguous and physically meaningful definition of secondary structure is essential. We have developed a set of simple and physically motivated criteria for secondary structure, programmed as a pattern
CATH -- a hierarchic classification of protein domain structures
- STRUCTURE
, 1997
"... Background: Protein evolution gives rise to families of structurally related proteins, within which sequence identities can be extremely low. As a result, structure-based classifications can be effective at identifying unanticipated relationships in known structures and in optimal cases function can ..."
Abstract
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Cited by 470 (33 self)
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can also be assigned. The ever increasing number of known protein structures is too large to classify all proteins manually, therefore, automatic methods are needed for fast evaluation of protein structures. Results: We present a semi-automatic procedure for deriving a novel hierarchical
BMC Structural Biology BioMed Central
, 2005
"... Research article Protein secondary structure assignment revisited: a detailed analysis of different assignment methods ..."
Abstract
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Research article Protein secondary structure assignment revisited: a detailed analysis of different assignment methods
Protein homology detection by HMM-HMM comparison
- BIOINFORMATICS
, 2005
"... Motivation: Protein homology detection and sequence alignment are at the basis of protein structure prediction, function prediction, and evolution. Results: We have generalized the alignment of protein se-quences with a profile hidden Markov model (HMM) to the case of pairwise alignment of profile H ..."
Abstract
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Cited by 401 (8 self)
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of 3691 protein domains from SCOP 1.63 with pairwise sequence identities below 20%. Sensitivity: When predicted secondary structure is included in the HMMs, HHsearch is able to detect between 2.7 and 4.2 times more homologs than PSI-BLAST or HMMER and between 1.44 and 1.9 times more than COMPASS or PROF
Assembly of protein tertiary structures from fragments with similar local sequences using simulated annealing and Bayesian scoring functions
- J. MOL. BIOL
, 1997
"... We explore the ability of a simple simulated annealing procedure to assemble native-like structures from fragments of unrelated protein structures with similar local sequences using Bayesian scoring functions. Environment and residue pair specific contributions to the scoring functions appear as the ..."
Abstract
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Cited by 393 (70 self)
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annealing procedure rapidly and frequently generates native-like structures for small helical proteins and better than random structures for small b sheet containing proteins. Most of the simulated structures have native-like solvent accessibility and secondary structure patterns, and thus ensembles
Results 1 - 10
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