regulatory proteins
Genetic regulatory proteins bind to segments of DNA and bring about gene regulation. Non-genetic classes of regulatory proteins include those target, effector proteins that are involved in special cellular functions such as signaling as receptor proteins and pumps, adhesion, chemotaxis, cellular transport and active transport, and metabolic regulation, including enzymatic action and protein degradation.
Repressors and other regulatory proteins probably search for target sequences by binding to DNA and scanning its major groove. Most regulatory proteins recognize DNA because they can slide along it while searching for a specific target sequence. Such a search would be much slower for a protein that cannot bind DNA. [s]
Tables Regulatory Proteins Sequences Gene Regulation in E.coli Second Messengers Cell signaling Cell Adhesion Molecules Enzymes Function Krebs Cycle Enzymes Cofactors of Krebs Cycle
Most gene regulation proteins are single proteins, often homodimers or homotetramers, which bind to two ligands: a. a metabolic intermediate, and b. a cis-acting gene regulation element.
Most of the known phosphorylated response regulators employ the two-component system to stimulate or repress the transcription of specific targetted genes.
Allosteric regulatory proteins alteration of metabolic pathways utilizing end product repression, enzyme induction, and catabolite repression. Like allosteric enzymes, these proteins alter their levels of activity in response to ligand-binding induced conformational (shape) changes. The allosteric or effector ligand is a small molecule that affects the active site by binding to the allosteric site. In the case of allosteric regulatory proteins, the active site is a DNA binding site, which binds, only when active, to a specific sequence of DNA. By binding to specific DNA sequences, the allosteric regulatory protein impacts levels of gene expression.
Items • allosteric enzymes • anabolism and catabolism • Control of prokaryotic gene expression • gene regulation • Interactions in Bacteria • phosphorylation • Phosphorylation switches in bacteria • phosphotransfer-mediated signaling pathways • Protein Kinase Signaling Networks • signaling gradients • signal transduction • two-component systems ••
Tables Regulatory Proteins Sequences Gene Regulation in E.coli Cell signaling Receptor Tyrosine Kinases(RTK) Second Messengers Phosphate-handling Enzymes Second Messengers
Cell signaling Immune Cytokines Electron Transport Chain vs Oxidative Phosphorylation Enzymes Function Krebs Cycle Enzymes Cofactors of Krebs Cycle Phosphate-handling enzymes
Specific Enzymes/Types : ·· A · adenylyl (adenylate) cyclase · allosteric enzymes · AP endonuclease (Ape1) ·· C · cAMP-dependent protein kinase · cyclin-dependent kinases ·· D · DAGKs · diacyl glycerol kinases · DNA glycosylase · DNA ligase · DNA Ligase I · DNA polymerases · DNA polymerase I · DNA polymerase beta · DNase IV · · E · exonuclease 1 · exosome ·· F · focal adhesion kinases (FAKs) · Fen1 · Flap Endonuclease FEN-1 · G · guanylate cyclases · guanyl cyclase ·· H · hOGG1 · hOGG1 oxoG repair ·· I · inducible transcription factors ·· L · LigIII · · M · MAP kinase · mitogen activated protein kinases · Msh2-Msh3 · MutS, MutL, and MutH ·· O · 8-oxoguanine glycosylase · oxoG repair hOGG1 ·· P · PCNA · phosphatases · phosphodiesterases · phospolipases · phospholipase C-gamma · PLC-G · protein kinase A · protein kinase C · protein tyrosine kinases (PTKs) · receptor tyrosine kinases · R · RNA polymerase · Replication factor C · reverse transcriptase · ribozymes · RNA polymerase II · RTKs ·· S · serine/threonine kinases · spliceosomal-mediated RNA trans-splicing · SMaRT ·· T · trans-splicing ribozymes ·· U · UvrD ·· X · XRCC1 ·
Specific proteins/types : ·· C · cAMP receptor binding protein · cofactor · core histones H2A, H2B, H3, and H4 · CRE-binding protein CREB · cytokines ·· E · elongation factor EF ·· G · general transcription factors ·· H · helicases : Helicase II · heterochromatin · histone · HP1 · I · inducible transcription factors · L · · LexA repressor ·· M · mCAT2 receptor · motor proteins ·· N · nucleosome ·· P · PcG proteins · PCNA · Polycomb group · proteome ·· R · RecA · regulatory proteins · repressor proteins · Receptor Tyrosine Kinases (RTKs) · ribosomes · RPA ·· S · serine rich (SR) splicing factors · silencers · Ski7p · small nuclear ribonucleoproteins (snRNPs) · spliceosome · SR (serine rich) splicing factors ·· T · TATA binding protein · TBP · trans-acting factors · trithorax group (trxG) ·· U · ubiquitin (Ub) · UPF1 UPF2 · upstream transcription factors ·
Repressors and other regulatory proteins probably search for target sequences by binding to DNA and scanning its major groove. Most regulatory proteins recognize DNA because they can slide along it while searching for a specific target sequence. Such a search would be much slower for a protein that cannot bind DNA. [s]
Tables Regulatory Proteins Sequences Gene Regulation in E.coli Second Messengers Cell signaling Cell Adhesion Molecules Enzymes Function Krebs Cycle Enzymes Cofactors of Krebs Cycle
Most gene regulation proteins are single proteins, often homodimers or homotetramers, which bind to two ligands: a. a metabolic intermediate, and b. a cis-acting gene regulation element.
Most of the known phosphorylated response regulators employ the two-component system to stimulate or repress the transcription of specific targetted genes.
Allosteric regulatory proteins alteration of metabolic pathways utilizing end product repression, enzyme induction, and catabolite repression. Like allosteric enzymes, these proteins alter their levels of activity in response to ligand-binding induced conformational (shape) changes. The allosteric or effector ligand is a small molecule that affects the active site by binding to the allosteric site. In the case of allosteric regulatory proteins, the active site is a DNA binding site, which binds, only when active, to a specific sequence of DNA. By binding to specific DNA sequences, the allosteric regulatory protein impacts levels of gene expression.
Items • allosteric enzymes • anabolism and catabolism • Control of prokaryotic gene expression • gene regulation • Interactions in Bacteria • phosphorylation • Phosphorylation switches in bacteria • phosphotransfer-mediated signaling pathways • Protein Kinase Signaling Networks • signaling gradients • signal transduction • two-component systems ••
Tables Regulatory Proteins Sequences Gene Regulation in E.coli Cell signaling Receptor Tyrosine Kinases(RTK) Second Messengers Phosphate-handling Enzymes Second Messengers
Cell signaling Immune Cytokines Electron Transport Chain vs Oxidative Phosphorylation Enzymes Function Krebs Cycle Enzymes Cofactors of Krebs Cycle Phosphate-handling enzymes
Specific Enzymes/Types : ·· A · adenylyl (adenylate) cyclase · allosteric enzymes · AP endonuclease (Ape1) ·· C · cAMP-dependent protein kinase · cyclin-dependent kinases ·· D · DAGKs · diacyl glycerol kinases · DNA glycosylase · DNA ligase · DNA Ligase I · DNA polymerases · DNA polymerase I · DNA polymerase beta · DNase IV · · E · exonuclease 1 · exosome ·· F · focal adhesion kinases (FAKs) · Fen1 · Flap Endonuclease FEN-1 · G · guanylate cyclases · guanyl cyclase ·· H · hOGG1 · hOGG1 oxoG repair ·· I · inducible transcription factors ·· L · LigIII · · M · MAP kinase · mitogen activated protein kinases · Msh2-Msh3 · MutS, MutL, and MutH ·· O · 8-oxoguanine glycosylase · oxoG repair hOGG1 ·· P · PCNA · phosphatases · phosphodiesterases · phospolipases · phospholipase C-gamma · PLC-G · protein kinase A · protein kinase C · protein tyrosine kinases (PTKs) · receptor tyrosine kinases · R · RNA polymerase · Replication factor C · reverse transcriptase · ribozymes · RNA polymerase II · RTKs ·· S · serine/threonine kinases · spliceosomal-mediated RNA trans-splicing · SMaRT ·· T · trans-splicing ribozymes ·· U · UvrD ·· X · XRCC1 ·
Specific proteins/types : ·· C · cAMP receptor binding protein · cofactor · core histones H2A, H2B, H3, and H4 · CRE-binding protein CREB · cytokines ·· E · elongation factor EF ·· G · general transcription factors ·· H · helicases : Helicase II · heterochromatin · histone · HP1 · I · inducible transcription factors · L · · LexA repressor ·· M · mCAT2 receptor · motor proteins ·· N · nucleosome ·· P · PcG proteins · PCNA · Polycomb group · proteome ·· R · RecA · regulatory proteins · repressor proteins · Receptor Tyrosine Kinases (RTKs) · ribosomes · RPA ·· S · serine rich (SR) splicing factors · silencers · Ski7p · small nuclear ribonucleoproteins (snRNPs) · spliceosome · SR (serine rich) splicing factors ·· T · TATA binding protein · TBP · trans-acting factors · trithorax group (trxG) ·· U · ubiquitin (Ub) · UPF1 UPF2 · upstream transcription factors ·
Labels: allosteric, chemotaxis, effector, genetic, regulatory, repressor