title: Identification and analysis of novel amino acid sequence repeats and domains in Pyrobaculum aerophilum using computational tools.
abstract: We have identified four repeats and five domains that are novel in proteins encoded by the Pyrobaculum aerophilum str. IM2 proteome using automated in silico methods. A "repeat" corresponds to a region comprising less than 55 amino acid residues that occurs more than once in the protein sequence and sometimes present in tandem. A "domain" corresponds to a conserved region comprising greater than 55 amino acid residues and may be present as single or multiple copies in the protein sequence. These correspond to (1) 85 amino acid residues AAG domain, (2) 72 amino acid residues GFGN domain, (3) 43 amino acid residues KGG repeat, (4) 25 amino acid residues RWE repeat, (5) 25 amino acid residues RID repeat, (6) 108 amino acid residues NDFA domain, (7) 140 amino acid residues VxY domain, (8) 35 amino acid residues LLPN repeat and (9) 98 amino acid residues GxY domain. A repeat or domain is characterized by specific conserved sequence motifs. We discuss the presence of these repeats and domains in proteins from other genomes and their probable secondary structure.
authors: School of Chemistry, University of Hyderabad, Hyderabad 500046, India.
authors: Golaconda
authors: G
authors: Hemalatha
authors: Inampudi Krishna
authors: IK
authors: Kishore
authors: Raghavarapu Srinivasa
authors: RS
authors: Rao
authors: Lalitha
authors: L
authors: Guruprasad
mesh_terms: D000595:Amino Acid Sequence; D019843:Archaeal Proteins / Q000737:chemistry*; D018360:Crystallography, X-Ray; D008969:Molecular Sequence Data; D041543:Pyrobaculum / Q000737:chemistry*; D020449:Repetitive Sequences, Amino Acid; D017386:Sequence Homology, Amino Acid
chemical_list: D019843:Archaeal Proteins