August 1987). ""Homology" in proteins and nucleic acids: a terminology muddle and a way out of it". Cell. 50 (5): 667. doi: ... Sequence homology is the biological homology between DNA, RNA, or protein sequences, defined in terms of shared ancestry in the ... Homologous sequence regions are also called conserved. This is not to be confused with conservation in amino acid sequences, ... Alignments of multiple sequences are used to indicate which regions of each sequence are homologous. The term "percent homology ...
"The MPI Bioinformatics Toolkit as an Integrative Platform for Advanced Protein Sequence and Structure Analysis." Nucleic Acids ... Homology is the relationship between biological structures or sequences derived from a common ancestor. Homologous proteins ( ... A sequence profile represents a multiple alignment of homologous sequences and describes what amino acids are likely to occur ... Nucleic Acids Research 25.17 (1997): 3389-402. Oxford University Press. Print [4] Bigert, A., and J. Söding. "Sequence Context- ...
... detection of distant homology using sequence profiles and predicted secondary structure". Nucleic Acids Research. 31 (13): 3804 ... ELM: the status of the 2010 eukaryotic linear motif ORFeus: detection of distant homology using sequence profiles and predicted ... Nucleic Acid Research and Gene. His papers are increasingly cited year after year (totalling 1050 - Google Scholar), which ... Nucleic Acids Research. 39 (suppl_1): -167-D180. Ginalski, Krzysztof; Pas, Jakub; Wyrwicz, Lucjan S; Grotthuss, Marcin von; ...
"The primary structure of human hemopexin deduced from cDNA sequence: evidence for internal, repeating homology". Nucleic Acids ... "The primary structure of human hemopexin deduced from cDNA sequence: evidence for internal, repeating homology". Nucleic Acids ... The introns were not placed randomly; they fell in the center of the region of amino acid sequence homology in strikingly ... Computer-assisted analysis of the internal homology in amino acid sequence suggested duplication of an ancestral gene thus ...
"Nucleotide sequence of transforming human c-sis cDNA clones with homology to platelet-derived growth factor". Nucleic Acids Res ...
Hloch P, Schiedner G, Stahl H (1990). "Complete cDNA sequence of the human p68 protein". Nucleic Acids Res. 18 (10): 3045. doi: ... Ford MJ, Anton IA, Lane DP (1988). "Nuclear protein with sequence homology to translation initiation factor eIF-4A". Nature. ... 2000). "Structure and expression of the human p68 RNA helicase gene". Nucleic Acids Res. 28 (4): 932-9. doi:10.1093/nar/28.4. ... Nucleic Acids Res. 31 (5): 1470-80. doi:10.1093/nar/gkg236. PMC 149829. PMID 12595555. Wilson BJ, Giguère V (2007). " ...
Any algorithm that is designed for homology search of nucleic acid sequences can be used, e.g., BLAST. However, such algorithms ... Eddy SR, Durbin R (June 1994). "RNA sequence analysis using covariance models". Nucleic Acids Res. 22 (11): 2079-2088. doi: ... Homology search refers to the process of searching a sequence database for RNAs that are similar to already known RNA sequences ... Tempel S, Tahi F (2012). "A fast ab-initio method for predicting miRNA precursors in genomes". Nucleic Acids Res. 40 (11): 955- ...
This unstructured stretch of sequence may be exposed to allow for interactions with nucleic acids or other proteins. The sisRNA ... sequence is ~100% conserved in EBV strains and homology extends to include other lymphocryptoviruses. The hairpin structure is ... Nucleotides 4 to 26 of ebv-sisRNA-1 form a short hairpin loop that presents a Uridine-rich sequence motif (a possible platform ... Epstein-Barr virus stable intronic-sequence RNAs (ebv-sisRNAs) are a class of non-coding RNAs generated by repeat introns in ...
"Identification of two large subdomains in TFIIE-alpha on the basis of homology between Xenopus and human sequences". Nucleic ... Acids Res. 20 (21): 5838. doi:10.1093/nar/20.21.5838. PMC 334425. PMID 1454543. Heng HH, Xiao H, Shi XM, Greenblatt J, Tsui LC ... Sumimoto H, Ohkuma Y, Sinn E, Kato H, Shimasaki S, Horikoshi M, Roeder RG (1991). "Conserved sequence motifs in the small ... "Structural motifs and potential sigma homologies in the large subunit of human general transcription factor TFIIE". Nature. 354 ...
... sequence homology with other human acute phase protein genes". Nucleic Acids Res. 13 (11): 3941-52. doi:10.1093/nar/13.11.3941 ... 1973). "Structure of 1 -acid glycoprotein. The complete amino acid sequence, multiple amino acid substitutions, and homology ... acid glycoprotein and the elucidation of the amino acid sequence of the carboxyl-terminal cyanogen bromide fragment". ... Board PG, Jones IM, Bentley AK (1986). "Molecular cloning and nucleotide sequence of human alpha 1 acid glycoprotein cDNA". ...
... "cDNA sequence of a new ras-related gene (rap2b) isolated from human platelets with sequence homology to rap2". Nucleic Acids ... The most striking difference between the RAP and RAS proteins resides in their 61st amino acid: glutamine in RAS is replaced by ... 2003). "Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences". Proc. Natl. Acad. Sci ... The proteins encoded by these genes share approximately 50% amino acid identity with the classical RAS proteins and have ...
The problem arises often in homology modeling, where the tertiary structure of an amino acid sequence is predicted based on a ... The FALC-Loop web server for protein loop modeling" Nucleic Acids Research 39, W210-W214 (2011). Lee J, Lee D, Park H, Coutsias ... Chung SY, Subbiah S. (1996.) A structural explanation for the twilight zone of protein sequence homology" Structure 4: 1123-27 ... The extent of the inaccuracy increases with the number of amino acids in the loop. The loop amino acids' side chains dihedral ...
Coconuts from Asia and the South Pacific have been found to have viroids with similar (homologous) nucleic acid sequences of ... Moreover, they share sequence homology with other viroids. Conditions for a viroid to infect its host include wounds on the ... The first step is the purification to obtain the nucleic acids of the plant cells. The leaves of the plant located four or more ... This viroid has 64% sequence homology with the cadang-cadang viroid. There are other related viroids with the CCCVd, which are ...
... a web server for the multiple sequence alignment of protein and RNA sequences using structural information and homology ... Nucleic Acids Res. 39 (Web Server issue): W13-7. doi:10.1093/nar/gkr245. PMC 3125728. PMID 21558174. Kemena C, Notredame C ( ... In its latest version, T-Coffee can be used to combine protein sequences and structures, RNA sequences and structures. It can ... It generates a library of pairwise alignments to guide the multiple sequence alignment. It can also combine multiple sequences ...
Venta PJ, Tashian RE (1990). "PCR detection of the TAQ1 polymorphism at the CA2 locus". Nucleic Acids Res. 18 (18): 5585. doi: ... 1988). "Cloning, expression, and sequence homologies of cDNA for human carbonic anhydrase II". Genomics. 1 (2): 159-66. doi: ... Nucleic Acids Res. 15 (11): 4687. doi:10.1093/nar/15.11.4687. PMC 340889. PMID 3108857. Murakami H, Marelich GP, Grubb JH, et ... Montgomery JC, Venta PJ, Tashian RE, Hewett-Emmett D (1987). "Nucleotide sequence of human liver carbonic anhydrase II cDNA". ...
Medema, Marnix H.; Takano, Eriko; Breitling, Rainer (2013-02-14). "Detecting Sequence Homology at the Gene Cluster Level with ... Tanako, Eriko (2013). "antiSMASH 2.0-a versatile platform for genome mining of secondary metabolite producers". Nucleic Acids ... These can include the secondary biosynthetic pathways that have been identified from any genome sequence. Genome sequencing ... Nucleic Acids Research. 39 (Web Server issue): W339-W346. doi:10.1093/nar/gkr466. PMC 3125804. PMID 21672958. ...
Krogh A, Mian IS, Haussler D (1994). "A hidden Markov model that finds genes in E. coli DNA". Nucleic Acids Res. 22 (22): 4768- ... 1996). "Dirichlet mixtures: a method for improved detection of weak but significant protein sequence homology". Comput. Appl. ... Nucleic Acids Res. 36 (Database issue): D102-6. doi:10.1093/nar/gkm955. PMC 2238834. PMID 18006571. Lindow M, Jacobsen A, ... Probabilistic Models of Proteins and Nucleic Acids (1st ed.), Cambridge, New York: Cambridge University Press, ISBN 0-521-62971 ...
Information may come from nucleic acid sequence homology, gene expression profiles, protein domain structures, text mining of ... coli protein sequences for homology in other genomes and find over 6000 pairs of sequences with shared homology to single ... August 1987). ""Homology" in proteins and nucleic acids: a terminology muddle and a way out of it". Cell. 50 (5): 667. doi: ... Because the two sequences in each protein pair are non-homologous, these interactions could not be predicted using homology- ...
... which recognizes the novel hexanucleotide sequence 5'-G(G/T)GC(A/C)C-3'". Nucleic Acids Res. 27 (13): 2644-5. doi:10.1093/nar/ ... Rina M, Markaki M, Bouriotis V (December 1994). "Sequence of the cloned bseCIM gene: M.BseCI reveals high homology to M.BanIII ... and the discovery of a wrongly sequenced site in pACYC177". Nucleic Acids Res. 19 (9): 2321-3. doi:10.1093/nar/19.9.2321. PMC ... which recognizes the pentanucleotide sequence 5'-CTCAG(N)(10/8)". Nucleic Acids Res. 29 (4): 895-903. doi:10.1093/nar/29.4.895 ...
Homology search tools may take an individual nucleic acid or protein sequence as input, or use statistical models generated ... In coding sequences, the nucleic acid and amino acid sequence may be conserved to different extents, as the degeneracy of the ... The codon usage bias in some organisms may restrict the types of synonymous mutations in a sequence. Nucleic acid sequences ... Conservation can occur in coding and non-coding nucleic acid sequences. Highly conserved DNA sequences are thought to have ...
... probabilistic models of proteins and nucleic acids, Cambridge University Press, 1998. Söding J (2005). "Protein homology ... Notredame C, Higgins DG (April 1996). "SAGA: sequence alignment by genetic algorithm". Nucleic Acids Res. 24 (8): 1515-24. doi: ... Notredame C, O'Brien EA, Higgins DG (1997). "RAGA: RNA sequence alignment by genetic algorithm". Nucleic Acids Res. 25 (22): ... Edgar RC (2004). "MUSCLE: multiple sequence alignment with high accuracy and high throughput". Nucleic Acids Research. 32 (5): ...
1998). Biological sequence analysis: probabilistic models of proteins and nucleic acids. Cambridge, UK: Cambridge University ... Girdea, M; Noe, L; Kucherov, G (January 2010). "Back-translation for discovering distant protein homologies in the presence of ... Sequence type: protein or nucleotide *Sequence type: protein or nucleotide **Alignment type: local or global *Sequence type: ... September 1997). "Gapped BLAST and PSI-BLAST: a new generation of protein database search programs". Nucleic Acids Research. 25 ...
... complete coding sequence and homology with other type II topoisomerases". Biochimica et Biophysica Acta (BBA) - Gene Structure ... Nucleic Acids Research. 21 (16): 3719-3723. doi:10.1093/nar/21.16.3719. PMC 309874. PMID 8396237. Nakano H, Yamazaki T, ... Activation of more than 600 regulatory sequences in promoters and 800 regulatory sequences in enhancers, in many cell types, ... Nucleic Acids Research. 20 (21): 5587-5592. doi:10.1093/nar/20.21.5587. PMC 334390. PMID 1333583. "Entrez Gene: TOP2B ...
"The HSSP database of protein structure-sequence alignments". Nucleic Acids Research. 25 (1): 226-230. doi:10.1093/nar/25.1.226 ... HSSP (Homology-derived Secondary Structure of Proteins) is a database that combines structural and sequence information about ... HSSP is also a database of homology-based implied protein structures. Protein Data Bank (PDB) STING Schneider, R.; de Daruvar, ...
WU virus was discovered by shotgun sequencing of the nucleic acids found in the respiratory secretions of a young patient ... Sequence homology was detected among the sequences found in the clinical sample and the known genomes of other human ... The complete genome of the WU virus has been sequenced and found to be a circular double-stranded DNA genome of 5229 base pairs ...
Homology (biology) KEGG Multiple Sequence Alignment MicrobesOnline home page IMG home page reference: Nucleic Acids Research, ... A curated non-redundant sequence database of genomes, transcripts and proteins". Nucleic Acids Research. 35 (Database issue): ... Bates, J. T.; Chivian, D.; Arkin, A. P. (2011). "GLAMM: Genome-Linked Application for Metabolic Maps". Nucleic Acids Research. ... Letunic, I.; Doerks, T.; Bork, P. (2009). "SMART 6: Recent updates and new developments". Nucleic Acids Research. 37 (Database ...
... sequence homology, amino acid MeSH G13.810.550 - sequence homology, nucleic acid MeSH G13.810.550.830 - synteny MeSH G13.920. ... sequence deletion MeSH G13.920.590.762.180 - chromosome deletion MeSH G13.920.590.762.320 - gene deletion MeSH G13.920.590.835 ...
... nucleic acid sequence - synapomorphy - homology - molecular clock - outgroup (cladistics) - maximum parsimony (phylogenetics ... genetic map DNA Nucleic acid double helix Nucleobase: adenine (A) - cytosine (C) - guanine (G) - thymine (T) - uracil (U) DNA ... phospholipids nucleic acids: DNA - RNA Outline of cell biology Cell structure: Cell coined by Robert Hooke Techniques: cell ... sequencing - shotgun sequencing - cloning - culture - DNA microarray - electrophoresis - protein tag - affinity chromatography ...
Beintema JJ, Wietzes P, Weickmann JL, Glitz DG (Jan 1984). "The amino acid sequence of human pancreatic ribonuclease". ... Nucleic Acids Research. 20 (3): 612. doi:10.1093/nar/20.3.612. PMC 310435. PMID 1741299. Sakakibara R, Hashida K, Tominaga N, ... N-terminal sequence homology with human nonsecretory ribonuclease". Chemical & Pharmaceutical Bulletin. 39 (1): 146-9. doi: ... Haugg M, Schein CH (Feb 1992). "The DNA sequences of the human and hamster secretory ribonucleases determined with the ...
E6 is a 151 amino-acid peptide that incorporates a type 1 motif with a consensus sequence -(T/S)-(X)-(V/I)-COOH. It also has ... Coggins LW, Ma JQ, Slater AA, Campo MS (June 1985). "Sequence homologies between bovine papillomavirus genomes mapped by a ... Nucleic Acids Research. 20 (11): 2889. doi:10.1093/nar/20.11.2889. PMC 336941. PMID 1319576. Varsani A, Kraberger S, Jennings S ... Compared to other papillomavirus genes, the amino acid sequences of most portions of L1 are well-conserved between types. ...