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*  Deubiquitinating enzyme
Within most DUSP domains in USPs there is a conserved sequence of amino acids known as the PGPI motif. This is a sequence of ...
*  DHHC domain
The DHHC domain was discovered in 1999 and named after a conserved sequence motif found in its protein sequence. Roth and ... However this short sequence is embedded in a larger region of about fifty amino acids in length that shares many more conserved ... Conserved motifs within protein sequences point towards the most important amino acid residues for function. In the DHHC domain ... The canonical DHHC domain can be described with the following sequence motif: C-x2-C-x9-HC-x2-C-x2-C-x4-DHHC-x5-C-x4-N-x3-F (x ...
*  JUNB
... multiple blocks of flanking evolutionarily conserved sequence at the murine and human junB loci". Genomics. 28 (2): 228-234. ... It binds to the DNA sequence 5'-TGA[CG]TCA-3'. JUNB has been shown to interact with BRCA1, and SMAD3. AP-1 (transcription ... The most frequent naturally occurring length polymorphism sequence introduces a novel binding site for AP-1 factors". J. Biol. ...
*  Nucleoporin
Peyro, M.; Soheilypour, M.; Lee, B.L.; Mofrad, M.R.K. (2015-11-06). "Evolutionarily Conserved Sequence Features Regulate the ... it has been recently shown that FG nucleoporins have specific evolutionary conserved features encoded in their sequences that ... they contain repeating sequences of the amino acids phenylalanine (F) and glycine (G). In doing so, karyopherins are able to ... "Physical Motif Clustering within Intrinsically Disordered Nucleoporin Sequences Reveals Universal Functional Features". PLoS ...
*  Small nucleolar RNA
C/D box snoRNAs contain two short conserved sequence motifs, C (RUGAUGA) and D (CUGA), located near the 5' and 3' ends of the ... H/ACA snoRNAs also contain conserved sequence motifs known as H box (consensus ANANNA) and the ACA box (ACA). Both motifs are ... bases complementary to the target sequence) are located. This recognition sequence is bipartite (constructed from the two ... A conserved region of 10-21 nucleotides upstream of the D box is complementary to the methylation site of the target RNA and ...
*  HCONDELs
The highly conserved chimpanzee sequences were searched against the human genome using BLAT to identify conserved regions not ... Chimpanzee sequences highly conserved in other species were then identified by pairwise alignment of chimpanzee with macaque, ... hCONDELs, on average remove about ninety-five base pairs (bp) of highly conserved sequences from the human genome. The median ... The mechanisms and time of occurrence of hCONDELs are not entirely understood but given that conserved non-coding sequences ...
*  Pharmacomicrobiomics
The sequence of 16S rRNA consists of highly conserved sequences which alternate with nine windows of "hypervariable regions". ... Sequencing technologies such as 16S rRNA shotgun metagenomic sequencing have facilitated the rapid expansion of the ... The primary means of characterization is through 16S rRNA sequencing and shotgun metagenomic sequencing. Body sites that are ... Advances in high-throughput sequencing has facilitated shotgun metagenome sequencing (SMS), a technology that provides a ...
*  Hammerhead ribozyme
The conserved uridine-turn links helix I to helix II and usually contains the sequence CUGA. Helix II and III are linked by a ... The hammerhead sequence is sufficient for self-cleavage and acts by forming a conserved three-dimensional tertiary structure. ... The minimal hammerhead sequence that is required for the self-cleavage reaction includes approximately 13 conserved or ... The minimal hammerhead ribozyme is composed of three base paired helices, separated by short linkers of conserved sequence as ...
*  P-type ATPase
... based strictly on a conserved sequence kernel excluding the highly variable N and C terminal regions. Chan et al. (2010) also ... M4 is unwound in this region due to a conserved proline (P308). This unwinding of M4 is recognised as a key structural feature ... The A domain dephosphorylates the P domain as part of the reaction cycle using a highly conserved TGES motif located at one end ... It is composed of two parts widely separated in sequence. These two parts assemble into a seven-strand parallel β-sheet with ...
*  Dispanin
... s in eukaryotes and bacteria have high sequence similarities and share several conserved sequence motifs indication a ... The sequences across a vast array of organisms, from bacteria to high level eukaryotes all contain the similar sequence motifs ...
*  EIF-W2 protein domain
... eukaryotic guanine nucleotide exchange translation initiation factor eIF-2B subunits revealed by analysis of conserved sequence ... eukaryotic guanine nucleotide exchange translation initiation factor eIF-2B subunits revealed by analysis of conserved sequence ...
*  Ricin
The ricin targets A4324 that is contained in a highly conserved sequence of 12 nucleotides universally found in eukaryotic ... The sequence, 5'-AGUACGAGAGGA-3', termed the sarcin-ricin loop, is important in binding elongation factors during protein ... If any of these native internalization sequences are present in a therapeutic agent, the drug will be internalized by, and kill ... The major problem with ricin is that its native internalization sequences are distributed throughout the protein. ...
*  Sequence alignment
... constructs global multiple sequence alignments that attempt to align short conserved sequence motifs among the sequences in the ... Sequenced RNA, such as expressed sequence tags and full-length mRNAs, can be aligned to a sequenced genome to find where there ... Multiple alignments are often used in identifying conserved sequence regions across a group of sequences hypothesized to be ... Sequence homology Sequence mining BLAST String searching algorithm Alignment-free sequence analysis UGENE Needleman-Wunsch ...
*  Origin recognition complex
A highly conserved sequence of 11bp (known as the A element) is thought to be essential for origin function in budding yeast. ... Animal cells contain a much more cryptic version of an ARS, with no conserved sequences found as of yet. However, in animal ... These 100-200bp sequences facilitate replication activity during S phase. ARSs can be placed at any novel location of the ... These replicons all have similar basic residues to which the ORC binds, which in many ways mimic the conserved 11bp A element. ...
*  Vault RNA
The reason being that vault RNA's generally have two very well conserved sequences, surrounded by regions of high variability. ... Vault RNAs are not the only kind of RNA with this type of semi-conserved/highly variable structure, other notable RNA's include ... Fragrep2 seeks to solve this problem by using a pattern-based logarithm that can match or almost match exact sequences of ... Also, given that the structure and protein composition are highly conserved among species, it is believed that the roles vault ...
*  Aralkylamine N-acetyltransferase
These elements are nearly universally conserved in spite of poor pairwise identity in sequence alignments. Regulation of AANAT ... This family shares four conserved sequence motifs designated A-D. Motif B serves as the location of the serotonin binding slot ... It is well conserved through evolution and the human form of the protein is 80% identical to sheep and rat AANAT. It is an ... The 3'UTR sequences have importance with regards to the rhythmic degradation of AANAT mRNA in some species. In rodents, various ...
*  DNA repair protein XRCC4
Recombination occurs in a specific region of the gene that is located between two conserved sequence motifs called ... It contains an additional sequence in the 5'UTR of the mRNA transcript and lacks a short sequence in the 3'coding region as ... A common conserved motif is typically found to be a target of SUMO modification, ΨKXE (where Ψ is a bulky, hydrophobic amino ... Each motif is flanked by a 7 bp and 9 bp sequence that is separated by a 12 bp spacer, referred to as class 1, or a 23 bp ...
*  DNA virus
It is thought that morphology is more conserved in this group than sequence similarity or gene order which is extremely ... Ilyina TV, Koonin EV (1992). "Conserved sequence motifs in the initiator proteins for rolling circle DNA replication encoded by ... The families A and B are distinguishable with family A Pol sharing 9 distinct consensus sequences and only two of them are ... Lamberto I, Gunst K, Müller H, Zur Hausen H, de Villiers EM (2014). "Mycovirus-like DNA virus sequences from cattle serum and ...
*  Let-7 microRNA precursor
"A search for conserved sequences in coding regions reveals that the let-7 microRNA targets Dicer within its coding sequence". ... And the sequences, expression timing, as well as genomic clustering of these miRNAs members are all conserved across species. ... This binding is facilitated by the conserved loop sequence of primary let-7 family members and RNA-binding domains of LIN28 ... There is only one single let-7 gene in the Drosophila genome, which has the identical mature sequence to the one in C.elegans. ...
*  Phylogenetic footprinting
Align the sequences. Look for conserved regions and analyse them. Not all transcription binding sites can be found using ... It is important to keep in mind that not all conserved sequences are under selection pressure. To eliminate false positives ... parts of the sequence being conserved among the different species. It is important when using this technique to decide which ... These motifs could be detected if sequences from more organisms are available. So this will be less of a problem in the future ...
*  Negative-sense single-stranded RNA virus
This is further supported by various L proteins displaying highly conserved sequence blocks that are in series, yet separated ... A unique aspect of NSVs is the conserved (3H+5H) motif, which has been identified to constitute the RNA cavity through ... The base stacking may actually contribute to the overall stability of the nucleocapsid, and is dependent on the RNA sequence (i ... In each case, the accessory proteins coded for in the nucleotide sequence inhibit a critical function of other innate cellular ...
*  Walker motifs
The conserved sequence of this motif is C-x(5)-R-[ST], where C and R denote cysteine and arginine residues respectively. The A- ... The Walker A and Walker B motifs are protein sequence motifs, known to have highly conserved three-dimensional structures. ... Apart from the conserved lysine, a feature of the P-loop used in phosphate binding is a compound LRLR nest comprising the four ... Walker et al reported the consensus sequence of this motif to be [RK]-x(4)-G-x(4)-LhhhhD, where R, K, G, L and D denote ...
*  MSH6
... which is the most highly conserved sequence found in all MutS homologs. As with other MutS homologs, hMSH6 has an intrinsic ... The identification of the human GTBP gene and subsequent amino acid sequence availability showed that yeast MSH6 and human GTBP ...
*  Phospholipase D
The active site of PLDs consists of four highly conserved amino acid sequences (I-IV), of which motifs II and IV are ... In plants and animals, this binding site is characterized by the presence of a conserved sequence of basic and aromatic amino ... PLD genes additionally encode highly conserved regulatory domains: the pbox consensus sequence (PX), the pleckstrin homology ... The highly conserved Pleckstrin homology domain (PH) is a structural domain approximately 120 amino acids in length. It binds ...
*  Fibrillarin
... has a well conserved sequence of around 320 amino acids, and contains 3 domains, an N-terminal Gly/Arg-rich region ... "cDNA cloning and sequencing of human fibrillarin, a conserved nucleolar protein recognized by autoimmune antisera". Proceedings ... Baserga SJ, Yang XD, Steitz JA (Sep 1991). "An intact Box C sequence in the U3 snRNA is required for binding of fibrillarin, ... Ai LS, Lin CH, Hsieh M, Li C (Oct 1999). "Arginine methylation of a glycine and arginine rich peptide derived from sequences of ...