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hox genes in different phyla have been given different names, which has led to confusion about nomenclature.
В различных таксонах гомеозисным генам были даны разные названия, что привело к путанице в номенклатуре.
conditionally active – requires activation** ii.a developmental (cell specific) – expression is tightly controlled, but, once expressed, require no additional activation – gata, hnf, pit-1, myod, myf5, hox, winged helix** ii.b signal-dependent – requires external signal for activation*** ii.b.1 extracellular ligand (endocrine or paracrine)-dependent – nuclear receptors*** ii.b.2 intracellular ligand (autocrine)-dependent - activated by small intracellular molecules – srebp, p53, orphan nuclear receptors*** ii.b.3 cell membrane receptor-dependent – second messenger signaling cascades resulting in the phosphorylation of the transcription factor**** ii.b.3.a resident nuclear factors – reside in the nucleus regardless of activation state – creb, ap-1, mef2**** ii.b.3.b latent cytoplasmic factors – inactive form reside in the cytoplasm, but, when activated, are translocated into the nucleus – stat, r-smad, nf-κb, notch, tubby, nfat=== structural ===transcription factors are often classified based on the sequence similarity and hence the tertiary structure of their dna-binding domains:*1 superclass: basic domains**1.1 class: leucine zipper factors (bzip)***1.1.1 family: ap-1(-like) components; includes (c-fos/c-jun)***1.1.2 family: creb***1.1.3 family: c/ebp-like factors***1.1.4 family: bzip / par***1.1.5 family: plant g-box binding factors***1.1.6 family: zip only**1.2 class: helix-loop-helix factors (bhlh)***1.2.1 family: ubiquitous (class a) factors***1.2.2 family: myogenic transcription factors (myod)***1.2.3 family: achaete-scute***1.2.4 family: tal/twist/atonal/hen**1.3 class: helix-loop-helix / leucine zipper factors (bhlh-zip)***1.3.1 family: ubiquitous bhlh-zip factors; includes usf (usf1, usf2); srebp (srebp)***1.3.2 family: cell-cycle controlling factors; includes c-myc**1.4 class: nf-1***1.4.1 family: nf-1 (a, b, c, x)**1.5 class: rf-x***1.5.1 family: rf-x (1, 2, 3, 4, 5, ank)**1.6 class: bhsh*2 superclass: zinc-coordinating dna-binding domains**2.1 class: cys4 zinc finger of nuclear receptor type***2.1.1 family: steroid hormone receptors***2.1.2 family: thyroid hormone receptor-like factors**2.2 class: diverse cys4 zinc fingers***2.2.1 family: gata-factors**2.3 class: cys2his2 zinc finger domain***2.3.1 family: ubiquitous factors, includes tfiiia, sp1***2.3.2 family: developmental / cell cycle regulators; includes krüppel***2.3.4 family: large factors with nf-6b-like binding properties**2.4 class: cys6 cysteine-zinc cluster**2.5 class: zinc fingers of alternating composition*3 superclass: helix-turn-helix**3.1 class: homeo domain***3.1.1 family: homeo domain only; includes ubx***3.1.2 family: pou domain factors; includes oct***3.1.3 family: homeo domain with lim region***3.1.4 family: homeo domain plus zinc finger motifs**3.2 class: paired box***3.2.1 family: paired plus homeo domain***3.2.2 family: paired domain only**3.3 class: fork head / winged helix***3.3.1 family: developmental regulators; includes forkhead***3.3.2 family: tissue-specific regulators***3.3.3 family: cell-cycle controlling factors***3.3.0 family: other regulators**3.4 class: heat shock factors***3.4.1 family: hsf**3.5 class: tryptophan clusters***3.5.1 family: myb***3.5.2 family: ets-type***3.5.3 family: interferon regulatory factors**3.6 class: tea ( transcriptional enhancer factor) domain***3.6.1 family: tea (tead1, tead2, tead3, tead4)*4 superclass: beta-scaffold factors with minor groove contacts**4.1 class: rhr (rel homology region)***4.1.1 family: rel/ankyrin; nf-kappab***4.1.2 family: ankyrin only***4.1.3 family: nfat (nuclear factor of activated t-cells) (nfatc1, nfatc2, nfatc3)**4.2 class: stat***4.2.1 family: stat**4.3 class: p53***4.3.1 family: p53**4.4 class: mads box***4.4.1 family: regulators of differentiation; includes (mef2)***4.4.2 family: responders to external signals, srf (serum response factor) ()***4.4.3 family: metabolic regulators (arg80)**4.5 class: beta-barrel alpha-helix transcription factors**4.6 class: tata binding proteins***4.6.1 family: tbp**4.7 class: hmg-box***4.7.1 family: sox genes, sry***4.7.2 family: tcf-1 (tcf1)***4.7.3 family: hmg2-related, ssrp1***4.7.4 family: ubf***4.7.5 family: mata**4.8 class: heteromeric ccaat factors***4.8.1 family: heteromeric ccaat factors**4.9 class: grainyhead***4.9.1 family: grainyhead**4.10 class: cold-shock domain factors***4.10.1 family: csd**4.11 class: runt***4.11.1 family: runt*0 superclass: other transcription factors**0.1 class: copper fist proteins**0.2 class: hmgi(y) (hmga1)***0.2.1 family: hmgi(y)**0.3 class: pocket domain**0.4 class: e1a-like factors**0.5 class: ap2/erebp-related factors***0.5.1 family: ap2***0.5.2 family: erebp***0.5.3 superfamily: ap2/b3****0.5.3.1 family: arf****0.5.3.2 family: abi****0.5.3.3 family: rav== see also ==* cdx protein family* dna-binding protein* inhibitor of dna-binding protein* nuclear receptor, a class of ligand activated transcription factors* phylogenetic footprinting* transfac database== references ====external links==* calculating transcription factor binding maps for chromatin* probability of transcription factor binding to dna* uri alon (2007).
* 1 Надкласс: basic domains (basic-helix-loop-helix)** 1.1 Класс: Лейциновая молния (bzip)*** 1.1.1 Семейство: ap-1(-like) components; includes (c-fos/c-jun)*** 1.1.2 Семейство: creb*** 1.1.3 Семейство: c/ebp-like factors*** 1.1.4 Семейство: bzip / par*** 1.1.5 Семейство: plant g-box binding factors*** 1.1.6 Семейство: zip only** 1.2 Класс: Спираль-петля-спираль (bhlh)*** 1.2.1 Семейство: ubiquitous (Класс a) factors*** 1.2.2 Семейство: myogenic transcription factors (myod)*** 1.2.3 Семейство: achaete-scute*** 1.2.4 Семейство: tal/twist/atonal/hen** 1.3 Класс: Спираль-петля-спираль / лейциновая молния factors (bhlh-zip)*** 1.3.1 Семейство: ubiquitous bhlh-zip factors; includes usf (usf1, usf2); srebp (srebp)*** 1.3.2 Семейство: cell-cycle controlling factors; includes c-myc** 1.4 Класс: nf-1*** 1.4.1 Семейство: nf-1 (nfic)** 1.5 Класс: rf-x*** 1.5.1 Семейство: rf-x (, , )** 1.6 Класс: bhsh* 2 Надкласс: zinc-coordinating dna-binding domains** 2.1 Класс: cys4 zinc finger of nuclear receptor type*** 2.1.1 Семейство: steroid hormone receptors*** 2.1.2 Семейство: thyroid hormone receptor-like factors** 2.2 Класс: diverse cys4 zinc fingers*** 2.2.1 Семейство: gata-factors** 2.3 Класс: cys2his2 zinc finger domain*** 2.3.1 Семейство: ubiquitous factors, includes tfiiia, sp1*** 2.3.2 Семейство: developmental / cell cycle regulators; includes krüppel*** 2.3.4 Семейство: large factors with nf-6b-like binding properties** 2.4 Класс: cys6 cysteine-zinc cluster** 2.5 Класс: zinc fingers of alternating composition* 3 Надкласс: Спираль-поворот-спираль** 3.1 Класс: Гомеодомен*** 3.1.1 Семейство: homeo domain only; includes ubx*** 3.1.2 Семейство: pou domain factors; includes oct*** 3.1.3 Семейство: homeo domain with lim region*** 3.1.4 Семейство: homeo domain plus zinc finger motifs** 3.2 Класс: paired box*** 3.2.1 Семейство: paired plus homeo domain*** 3.2.2 Семейство: paired domain only** 3.3 Класс: fork head / winged helix*** 3.3.1 Семейство: developmental regulators; includes forkhead*** 3.3.2 Семейство: tissue-specific regulators*** 3.3.3 Семейство: cell-cycle controlling factors*** 3.3.0 Семейство: other regulators** 3.4 Класс: heat shock factors*** 3.4.1 Семейство: hsf** 3.5 Класс: tryptophan clusters*** 3.5.1 Семейство: myb*** 3.5.2 Семейство: ets-type*** 3.5.3 Семейство: interferon regulatory factors** 3.6 Класс: tea (transcriptional enhancer factor) domain*** 3.6.1 Семейство: tea (tead1, tead2, tead3, tead4)* 4 Надкласс: beta-scaffold factors with minor groove contacts** 4.1 Класс: rhr (rel homology region)*** 4.1.1 Семейство: rel/ankyrin; nf-kappab*** 4.1.2 Семейство: ankyrin only*** 4.1.3 Семейство: nf-at (nuclear factor of activated t-cells) (nfatc1, nfatc2, nfatc3)** 4.2 Класс: stat*** 4.2.1 Семейство: stat** 4.3 Класс: p53*** 4.3.1 Семейство: p53** 4.4 Класс: mads box*** 4.4.1 Семейство: regulators of differentiation; includes (mef2)**** 4.4.2 Семейство: responders to external signals, srf (serum response factor) ()** 4.5 Класс: beta-barrel alpha-helix transcription factors** 4.6 Класс: tata binding proteins*** 4.6.1 Семейство: tbp*** 4.7.1 Семейство: sox genes, sry*** 4.7.2 Семейство: tcf-1 (tcf1)*** 4.7.3 Семейство: hmg2-related, ssrp1*** 4.7.5 Семейство: mata** 4.8 Класс: heteromeric ccaat factors*** 4.8.1 Семейство: heteromeric ccaat factors** 4.9 Класс: grainyhead*** 4.9.1 Семейство: grainyhead** 4.10 Класс: cold-shock domain factors*** 4.10.1 Семейство: csd** 4.11 Класс: runt*** 4.11.1 Семейство: runt* 0 Надкласс: Другие факторы транскрипции** 0.1 Класс: copper fist proteins** 0.2 Класс: hmgi(y) (hmga1)*** 0.2.1 Семейство: hmgi(y)** 0.3 Класс: pocket domain** 0.4 Класс: e1a-like factors** 0.5 Класс: ap2/erebp-related factors*** 0.5.1 Семейство: ap2*** 0.5.2 Семейство: erebp*** 0.5.3 Надсемейство: ap2/b3**** 0.5.3.1 Семейство: arf**** 0.5.3.2 Семейство: abi**** 0.5.3.3 Семейство: ravcrispr систему можно адаптировать так, чтобы она действовала как транскрипционный фактор (crisprtf).
