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*  Repressor
In molecular genetics, a repressor is a DNA- or RNA-binding protein that inhibits the expression of one or more genes by ... AdoMet binds to a pocket in MetJ that does not overlap the site of DNA binding. The Met box has the sequence AGACGTCT which is ... An RNA-binding repressor binds to the mRNA and prevents translation of the mRNA into protein. This blocking of expression is ... This is how the protein checks for the recognition site as it allows the DNA duplex to follow the shape of the protein. In ...
*  Protein primary structure
The phosphorylated tyrosines are often used as "handles" by which proteins can bind to one another, whereas phosphorylation of ... in protein-DNA complexes. Lysine residues can be singly, doubly and even triply methylated. Methylation does not alter the ... Functionally, however, the acetylation of lysine residues is used to regulate the binding of proteins to nucleic acids. The ... Protein primary structure is the linear sequence of amino acids in a peptide or protein. By convention, the primary structure ...
*  DNA-binding protein
A distinct group of DNA-binding proteins are the DNA-binding proteins that specifically bind single-stranded DNA. In humans, ... DNA-binding proteins are proteins composed of DNA-binding domains and thus have a specific or general affinity for either ... Other non-specific DNA-binding proteins in chromatin include the high-mobility group (HMG) proteins, which bind to bent or ... Structural proteins that bind DNA are well-understood examples of non-specific DNA-protein interactions. Within chromosomes, ...
*  Bacterial DNA binding protein
DNA-binding domain DNA-binding protein DNA-binding protein from starved cells Transcription factor Drlica K, Rouviere-Yaniv J ( ... Following elution, the protein readily binds DNA, indicating the protein's high affinity for DNA. Histone-like proteins were ... bacterial DNA binding proteins are a family of small, usually basic proteins of about 90 residues that bind DNA and are known ... In DNA replication at the lagging strand site, DNA polymerase III removes nucleotides individually from the DNA binding protein ...
*  Single-strand DNA-binding protein
... (SSB) is a protein found in Escherichia coli (E. coli) bacteria, that binds to single- ... DNA-binding protein Single-stranded binding protein Comparison of nucleic acid simulation software Oakley, A.J. "Intramolecular ... "Crystal structure of the homo-tetrameric DNA binding domain of Escherichia coli single-stranded DNA-binding protein determined ... As well as stabilizing this single-stranded DNA, SSB proteins bind to and modulate the function of numerous proteins involved ...
*  Inhibitor of DNA-binding protein
Inhibitor of DNA-binding/differentiation proteins, also known as ID proteins comprise a family of proteins that heterodimerize ... ID proteins can bind E-proteins, preventing them from binding bHLH proteins and halting transcription, a case often seen in ... transcription factors to inhibit DNA binding of bHLH proteins. ID proteins also contain the HLH-dimerization domain but lack ... The first helix-loop-helix proteins identified were named E-proteins because they bind to Ephrussi-box (E-box) sequences. In ...
*  SAND DNA-binding protein domain
The precise function of the protein domain SAND remains to be determined. Nevertheless, it is thought to be a DNA binding ... Henceforth, this suggests that the SAND domain is the DNA-binding region of DEAF-1. The structure of this protein domain ... In molecular biology, the protein domain SAND is named after a range of proteins in the protein family: Sp100, AIRE-1, NucP41/ ... Speckled protein 100 kDa), NUDR (Nuclear DEAF-1 related), GMEB (Glucocorticoid Modulatory Element Binding) proteins and AIRE-1 ...
*  DNA-binding protein from starved cells
"Iron and hydrogen peroxide detoxification properties of DNA-binding protein from starved cells. A ferritin-like DNA-binding ... "Iron and hydrogen peroxide detoxification properties of DNA-binding protein from starved cells. A ferritin-like DNA-binding ... DNA-binding proteins from starved cells (DPS) are proteins that belong to the ferritin superfamily and are characterized by ... Chiancone, E.; Ceci, P. (2010). "Role of Dps (DNA-binding proteins from starved cells) aggregation on DNA". Frontiers in ...
*  DNA damage-binding protein
... or UV-DDB is a protein complex that is responsible for repair of UV-damaged DNA. This complex is ... "Damage-specific DNA binding protein 1 (DDB1): a protein with a wide range of functions" (PDF). The International Journal of ... for the p127 and p48 subunits of a human damage-specific DNA binding protein". Genomics. 29 (1): 62-9. doi:10.1006/geno. ... DDB1 moves from the cytosol to the nucleus and binds to DDB2, thus forming the UV-DDB complex. This complex functions in ...
*  Structural motif
Zinc finger: Two beta strands with an alpha helix end folded over to bind a zinc ion. Important in DNA binding proteins. Helix- ... In most DNA motifs, for example, it is assumed that the DNA of that sequence does not deviate from the normal "double helical" ... Sequence motif Short linear motif PROSITE Database of protein families and domains SCOP Structural classification of Proteins ... In proteins, a structural motif describes the connectivity between secondary structural elements. An individual motif usually ...
*  PRDM9
Wahls WP, Swenson G, Moore PD (June 1991). "Two hypervariable minisatellite DNA binding proteins". Nucleic Acids Research. 19 ( ... Wahls WP, Swenson G, Moore PD (June 1991). "Two hypervariable minisatellite DNA binding proteins". Nucleic Acids Research. 19 ( ... These hotspots are binding sites for the PRDM9 Zinc Finger array. Upon binding to DNA, PRDM9 catalyzes trimethylation of ... minisatelite binding protein 3). This would later turn out to be the same PRDM9 protein independently identified later. In 2005 ...
*  DNA-functionalized quantum dots
Catherine J. Murphy; Eric B. Brauns; Latha Gearheart (1996). "Quantum Dots as Inorganic DNA-Binding Proteins". MRS Proceedings ... Binding DNA to the surface of a quantum dot increases the stability of the quantum dots. The DNA chains provide more ... protein binding, and biomarkers. The ability to visualize the chemical and biological processes of DNA allows feedback to ... This results in less strands of DNA binding to each quantum dot. Lower ionic strength results more stable quantum dots, but ...
*  ARID2
Patsialou A, Wilsker D, Moran E (2005). "DNA-binding properties of ARID family proteins". Nucleic Acids Research. 33 (1): 66-80 ... type winged-helix DNA-binding domain, and a conserved N-terminal AT-rich DNA interaction domain-the last domain for which the ... "Nomenclature of the ARID family of DNA-binding proteins". Genomics. 86 (2): 242-51. doi:10.1016/j.ygeno.2005.03.013. PMID ... The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro". DNA Research. 7 (4): 273-81. ...
*  HMGB1
After binding, HMGB1 bends DNA, which facilitates the binding of other proteins. HMGB1 supports transcription of many genes in ... HMGB1 is an intracellular protein that can translocate to the nucleus where it binds DNA and regulates gene expression. It can ... Thomas JO, Travers AA (2001). "HMG1 and 2, and related 'architectural' DNA-binding proteins". Trends Biochem. Sci. 26 (3): 167- ... High mobility group box 1 protein, also known as high-mobility group protein 1 (HMG-1) and amphoterin, is a protein that in ...
*  Electrophoretic mobility shift assay
This procedure can determine if a protein or mixture of proteins is capable of binding to a given DNA or RNA sequence, and can ... Once DNA-protein binding is determined in vitro, a number of algorithms can narrow the search for identification of the ... While isotopic DNA labeling has little or no effect on protein binding affinity, use of non-isotopic labels including ... Smith AJ, Humphries SE (January 2009). "Characterization of DNA-binding proteins using multiplexed competitor EMSA". J. Mol. ...
*  Spermidine
May be used for purification of DNA-binding proteins. Spermidine is also used, along with calcium chloride, for precipitating ... Binds and precipitates DNA Polyamine plant growth regulator Good dietary sources of spermidine are aged cheese, mushrooms, soy ... Spermidine is at physiological pH a polycationic reagent that aids in enzyme digestion by forcing apart DNA molecules. ... Spermidine can be used in electroporation while transferring the DNA into the cell under the electrical impulse. ...
*  Blot (biology)
Bowen B, Steinberg J, Laemmli UK, Weintraub H (January 1980). "The detection of DNA-binding proteins by protein blotting". ... A Southwestern blot is based on Southern blotting and is used to identify and characterize DNA-binding proteins by their ... Similar to a Western blot, the Far-Western blot uses protein-protein interactions to detect the presence of a specific protein ... Northern blot for RNA Reverse Northern blot for RNA Western blot for proteins Far-Western blot for protein-protein interactions ...
*  Facilitated diffusion
There are 2 main steps involved: the protein binds to a non-specific site on the DNA and then it diffuses along the DNA chain ... The in vivo model mentioned above clearly explains 3-D and 1-D diffusion along the DNA strand and the binding of proteins to ... Klenin, K., Merlitz, H., Langowski, J., & Wu, C. (2006). Facilitated diffusion of DNA-binding proteins. Physical Review Letters ... ISBN 978-0387-79239-2. Klenin, K., Merlitz,, Langowski, J., & Wu, C. (2006). Facilitated diffusion of DNA-binding proteins. ...
*  Ethylene-responsive element binding protein
GCC box DNA-binding protein interacts with an ocs element binding protein". Proc. Natl. Acad. Sci. U.S.A. 94 (11): 5961-6. doi: ... Ohme-Takagi M, Shinshi H (February 1995). "Ethylene-inducible DNA binding proteins that interact with an ethylene-responsive ... Ethylene-responsive element binding protein (EREBP) is a homeobox gene from Arabidopsis thaliana and other plants which encodes ... ethylene-responsive element binding protein at the US National Library of Medicine Medical Subject Headings (MeSH). ...
*  CHD7
DNA Research. 7 (1): 65-73. doi:10.1093/dnares/7.1.65. PMID 10718198. "Entrez Gene: chromodomain helicase DNA binding protein 7 ... Chromodomain-helicase-DNA-binding protein 7 also known as ATP-dependent helicase CHD7 is an enzyme that in humans is encoded by ... In GeneReviews CHD7 protein, human at the US National Library of Medicine Medical Subject Headings (MeSH) Human CHD7 genome ... CHD7 is an ATP-dependent chromatin remodeler homologous to the Drosophila trithorax-group protein Kismet. Mutations in CHD7 are ...
*  CHD3
Chromodomain-helicase-DNA-binding protein 3 is an enzyme that in humans is encoded by the CHD3 gene. This gene encodes a member ... "Entrez Gene: CHD3 chromodomain helicase DNA binding protein 3". Tong JK, Hassig CA, Schnitzler GR, Kingston RE, Schreiber SL ( ... "Ikaros DNA-binding proteins direct formation of chromatin remodeling complexes in lymphocytes". Immunity. 10 (3): 345-55. doi: ... "A human protein-protein interaction network: a resource for annotating the proteome". Cell. 122 (6): 957-68. doi:10.1016/j.cell ...
*  CHD8
The gene CHD8 encodes the protein chromodomain helicase DNA binding protein 8, which is a chromatin regulator enzyme that is ... Chromodomain-helicase-DNA-binding protein 8 is an enzyme that in humans is encoded by the CHD8 gene. ... "Entrez Gene: CHD8 chromodomain helicase DNA binding protein 8". Nishiyama M, Oshikawa K, Tsukada Y, Nakagawa T, Iemura S, ... The protein contains an Snf2 helicase domain that is responsible for the hydrolysis of ATP to ADP. CHD8 encodes for a DNA ...
*  SSBP3
Single-stranded DNA-binding protein 3 is a protein that in humans is encoded by the SSBP3 gene. GRCh38: Ensembl release 89: ... "Entrez Gene: SSBP3 single stranded DNA binding protein 3". Wu L (January 2006). "Structure and functional characterization of ... "Cloning of a cDNA encoding a sequence-specific single-stranded-DNA-binding protein from Rattus norvegicus". Gene. 237 (1): 201- ... "Ssdp proteins interact with the LIM-domain-binding protein Ldb1 to regulate development". Proceedings of the National Academy ...
*  CHD5
Chromodomain-helicase-DNA-binding protein 5 is an enzyme that in humans is encoded by the CHD5 gene. GRCh38: Ensembl release 89 ... "Entrez Gene: CHD5 chromodomain helicase DNA binding protein 5". Human CHD5 genome location and CHD5 gene details page in the ... The complete sequences of 150 new cDNA clones from brain which code for large proteins in vitro". DNA Res. 7 (1): 65-73. doi: ... 2002). "The DNA sequence and comparative analysis of human chromosome 20". Nature. 414 (6866): 865-71. doi:10.1038/414865a. ...
*  SSBP2
Single-stranded DNA-binding protein 2 is a protein that in humans is encoded by the SSBP2 gene. GRCh38: Ensembl release 89: ... "Entrez Gene: SSBP2 single-stranded DNA binding protein 2". Hu RM, Han ZG, Song HD, et al. (2000). "Gene expression profiling in ... "Adenoviral E1B55K oncoprotein sequesters candidate leukemia suppressor sequence-specific single-stranded DNA-binding protein 2 ... 2005). "Towards a proteome-scale map of the human protein-protein interaction network". Nature. 437 (7062): 1173-8. doi:10.1038 ...
*  UCKL1
2002). "Epstein-Barr virus encoded nuclear protein EBNA-3 binds a novel human uridine kinase/uracil phosphoribosyltransferase ... 2002). "The DNA sequence and comparative analysis of human chromosome 20". Nature. 414 (6866): 865-71. doi:10.1038/414865a. ... 2006). "A probability-based approach for high-throughput protein phosphorylation analysis and site localization". Nat. ...
*  CHD9
Chromodomain-helicase-DNA-binding protein 9 is an enzyme that in humans is encoded by the CHD9 gene. Model organisms have been ... "Entrez Gene: CHD9 chromodomain helicase DNA binding protein 9". Gerdin AK (2010). "The Sanger Mouse Genetics Programme: high ... a chromodomain helicase-DNA-binding protein, with promoters in osteoprogenitors". Stem Cells. 24 (5): 1288-93. doi:10.1634/ ... a novel chromodomain helicase DNA-binding protein". Journal of Molecular Biology. 352 (3): 646-55. doi:10.1016/j.jmb.2005.06. ...