PubMed

Measuring the functional sequence complexity of proteins.

Durston KK, Chiu DK, Abel DL, Trevors JT.

Theor Biol Med Model. 2007 Dec 6;4:47.PMID: 18062814 [PubMed - indexed for MEDLINE]Related articlesFree article

Three subsets of sequence complexity and their relevance to biopolymeric information.

Abel DL, Trevors JT.

Theor Biol Med Model. 2005 Aug 11;2:29. Review.PMID: 16095527 [PubMed - indexed for MEDLINE]Related articlesFree article

RNACompress: Grammar-based compression and informational complexity measurement of RNA secondary structure.

Liu Q, Yang Y, Chen C, Bu J, Zhang Y, Ye X.

BMC Bioinformatics. 2008 Mar 31;9:176.PMID: 18373878 [PubMed - indexed for MEDLINE]Related articlesFree article

BADASP: predicting functional specificity in protein families using ancestral sequences.

Edwards RJ, Shields DC.

Bioinformatics. 2005 Nov 15;21(22):4190-1. Epub 2005 Sep 13.PMID: 16159912 [PubMed - indexed for MEDLINE]Related articlesFree article

PSI-2: structural genomics to cover protein domain family space.

Dessailly BH, Nair R, Jaroszewski L, Fajardo JE, Kouranov A, Lee D, Fiser A, Godzik A, Rost B, Orengo C.

Structure. 2009 Jun 10;17(6):869-81. Review.PMID: 19523904 [PubMed - indexed for MEDLINE]Related articles

Predicting protein disorder by analyzing amino acid sequence.

Yang JY, Yang MQ.

BMC Genomics. 2008 Sep 16;9 Suppl 2:S8.PMID: 18831799 [PubMed - indexed for MEDLINE]Related articlesFree article

A tale of two symmetrical tails: structural and functional characteristics of palindromes in proteins.

Sheari A, Kargar M, Katanforoush A, Arab S, Sadeghi M, Pezeshk H, Eslahchi C, Marashi SA.

BMC Bioinformatics. 2008 Jun 11;9:274.PMID: 18547401 [PubMed - indexed for MEDLINE]Related articlesFree article

Functionality of system components: conservation of protein function in protein feature space.

Jensen LJ, Ussery DW, Brunak S.

Genome Res. 2003 Nov;13(11):2444-9. Epub 2003 Oct 14.PMID: 14559779 [PubMed - indexed for MEDLINE]Related articlesFree article

PURE: a webserver for the prediction of domains in unassigned regions in proteins.

Reddy CC, Shameer K, Offmann BO, Sowdhamini R.

BMC Bioinformatics. 2008 Jun 14;9:281.PMID: 18554415 [PubMed - indexed for MEDLINE]Related articlesFree article

Structural descriptor database: a new tool for sequence-based functional site prediction.

Bernardes JS, Fernandez JH, Vasconcelos AT.

BMC Bioinformatics. 2008 Nov 25;9:492.PMID: 19032768 [PubMed - indexed for MEDLINE]Related articlesFree article

0j.py: a software tool for low complexity proteins and protein domains.

Wise MJ.

Bioinformatics. 2001;17 Suppl 1:S288-95.PMID: 11473020 [PubMed - indexed for MEDLINE]Related articlesFree article

Inferring modules of functionally interacting proteins using the Bond Energy Algorithm.

Watanabe RL, Morett E, Vallejo EE.

BMC Bioinformatics. 2008 Jun 17;9:285.PMID: 18559112 [PubMed - indexed for MEDLINE]Related articlesFree article

Identification of novel DNA repair proteins via primary sequence, secondary structure, and homology.

Brown JB, Akutsu T.

BMC Bioinformatics. 2009 Jan 20;10:25.PMID: 19154573 [PubMed - indexed for MEDLINE]Related articlesFree article

Fr-TM-align: a new protein structural alignment method based on fragment alignments and the TM-score.

Pandit SB, Skolnick J.

BMC Bioinformatics. 2008 Dec 12;9:531.PMID: 19077267 [PubMed - indexed for MEDLINE]Related articlesFree article

Towards comprehensive structural motif mining for better fold annotation in the "twilight zone" of sequence dissimilarity.

Jia Y, Huan J, Buhr V, Zhang J, Carayannopoulos LN.

BMC Bioinformatics. 2009 Jan 30;10 Suppl 1:S46.PMID: 19208148 [PubMed - indexed for MEDLINE]Related articlesFree article

Functional annotation by sequence-weighted structure alignments: statistical analysis and case studies from the Protein 3000 structural genomics project in Japan.

Standley DM, Toh H, Nakamura H.

Proteins. 2008 Sep;72(4):1333-51.PMID: 18384072 [PubMed - indexed for MEDLINE]Related articles

Insights into protein structure and function from disorder-complexity space.

Weathers EA, Paulaitis ME, Woolf TB, Hoh JH.

Proteins. 2007 Jan 1;66(1):16-28.PMID: 17044059 [PubMed - indexed for MEDLINE]Related articles

Combining specificity determining and conserved residues improves functional site prediction.

Kalinina OV, Gelfand MS, Russell RB.

BMC Bioinformatics. 2009 Jun 9;10:174.PMID: 19508719 [PubMed - indexed for MEDLINE]Related articlesFree article

WSsas: a web service for the annotation of functional residues through structural homologues.

Talavera D, Laskowski RA, Thornton JM.

Bioinformatics. 2009 May 1;25(9):1192-4. Epub 2009 Feb 27.PMID: 19251774 [PubMed - indexed for MEDLINE]Related articles

Protein meta-functional signatures from combining sequence, structure, evolution, and amino acid property information.

Wang K, Horst JA, Cheng G, Nickle DC, Samudrala R.

PLoS Comput Biol. 2008 Sep 26;4(9):e1000181.PMID: 18818722 [PubMed - indexed for MEDLINE]Related articlesFree article