Transcription Factor Classification
Last modified 2002-10-01
1 Superclass: Basic Domains
1.1 Class: Leucine zipper factors (bZIP).
1.1.1 Family: AP-1(-like) components
1.1.1.1 Subfamily: Jun
1.1.1.2 Subfamily: Fos
1.1.1.3 Subfamily: Maf
1.1.1.4 Subfamily: NF-E2
1.1.1.4.1 NF-E2 p45 (human); NF-E2 p45 (mouse).
1.1.1.4.1.1 aNF-E2
1.1.1.4.1.2 fNF-E2
1.1.1.4.2 Nrf1
1.1.1.4.3 Nrf2 (human).
1.1.1.4.4 ECH (chick).
1.1.1.4.5 Cnc (fruit fly).
1.1.1.5 Subfamily: fungal AP-1-like factors
1.1.1.5.1 GCN4 (yeast).
1.1.1.5.2 CPC1 (Neurospora crassa).
1.1.1.5.3 yAP-1 (yeast).
1.1.1.5.4 yAP-2 (yeast).
1.1.1.5.5 Pap1+ (fission yeast).
1.1.1.6 Subfamily: CRE-BP/ATF
1.1.1.6.1 CREB-2 (human).
1.1.1.6.2 ATF-3
1.1.1.6.3 CRE-BP
1.1.1.6.3.1 CRE-BP1 (human).
1.1.1.6.3.2 CRE-BP2 (mouse).
1.1.1.6.3.3 CRE-BP3
1.1.1.6.4 CRE-BPa (human).
1.1.1.6.5 ATF-a
1.1.1.6.6 yATF (yeast); yATF (fission yeast).
1.1.1.0 Subfamily: Others
1.1.1.0.1 Zta (EBV).
1.1.1.0.2 CYS3 (Neurospora crassa).
1.1.2 Family: CREB
1.1.2.0.1 CREB
1.1.2.0.2 ATF-1 (human); ATF-1 (mouse).
1.1.2.0.3 CREM
1.1.2.0.4 BBF-2 (fruit fly).
1.1.2.0.5 dCREB2
1.1.2.0.5.1 dCREB2-a (fruit fly).
1.1.2.0.5.2 dCREB2-b
1.1.2.0.5.3 dCREB2-c
1.1.2.0.5.4 dCREB2-d
1.1.2.0.5.5 dCREB2-q
1.1.2.0.5.6 dCREB2-r
1.1.2.0.5.7 dCREB2-s
1.1.2.0.6 SKO1 (yeast).
1.1.2.0.7 HAC1 (yeast).
1.1.2.0.8 Pcr1 (fission yeast).
1.1.3 Family: C/EBP-like factors
1.1.4 Family: bZIP / PAR
1.1.4.0.1 DBP (rat).
1.1.4.0.2 VBP (chick).
1.1.4.0.3 Hlf (human).
1.1.4.0.4 TEF (rat).
1.1.5 Family: Plant G-box binding factors
1.1.5.1 Subfamily: CPRF-2 ("V")
1.1.5.2 Subfamily: EmBP-1 ("E")
1.1.5.3 Subfamily: HBP-1a ("Q")
1.1.5.4 Subfamily: TGA1a ("L/M")
1.1.5.5 Subfamily: TGA1b ("R")
1.1.5.5.1 TGA1b (tobacco).
1.1.5.5.2 O2 (maize).
1.1.6 Family: ZIP only
1.1.6.0.1 SWI6 (yeast).
1.1.6.0.2 SWI4 (yeast).
1.1.6.0.3 STE4 (fission yeast).
1.1.6.0.4 IREBF-1 (mouse).
1.1.6.0.5 GCF (human).
1.1.0 Family: Other bZIP factors
1.1.0.0.1 Giant (fruit fly).
1.1.0.0.2 OPI1
1.2 Class: Helix-loop-helix factors (bHLH).
1.2.1 Family: Ubiquitous (class A) factors
1.2.1.0.1 E2A
1.2.1.0.1.1 E12 (human); E12 (rat); E12 (mouse); E12 (clawed frog).
1.2.1.0.1.2 E47 (human); E47 (rat); E47 (rat); E47 (mouse).
1.2.1.0.1.3 ITF-1 (human).
1.2.1.0.2 E2-2
1.2.1.0.3 m3 (mouse).
1.2.1.0.4 HEB / SCBP (human).
1.2.1.0.5 Daughterless (fruit fly).
1.2.2 Family: Myogenic transcription factors
1.2.3 Family: Achaete-Scute
1.2.4 Family: Tal/Twist/Atonal/Hen
1.2.4.1 Subfamily: Lymphoid factors
1.2.4.1.1 Tal-1
1.2.4.1.1.1 p42Tal-1 (human).
1.2.4.1.1.2 p39Tal-1
1.2.4.1.1.3 p22Tal-1
1.2.4.1.1.4
1.2.4.1.1.5
1.2.4.1.1.6
1.2.4.1.1.7
1.2.4.1.1.8
1.2.4.1.1.9
1.2.4.1.2 Tal-2 (human); Tal-2 (mouse).
1.2.4.1.3 Lyl-1 (human); Lyl-1 (mouse).
1.2.4.2 Subfamily: Mesodermal Twist-like factors
1.2.4.3 Subfamily: HEN
1.2.4.4 Subfamily: Atonal
1.2.4.5 Subfamily: Pancreatic factors
1.2.5 Family: Hairy
1.2.5.1 Subfamily: Hairy
1.2.5.2 Subfamily: Esp
1.2.5.3 Subfamily: Fungal regulators
1.2.5.3.1 PHO4 (yeast).
1.2.5.3.2 NUC-1 (Neurospora crassa).
1.2.6 Family: Factors with PAS domain
1.2.7 Family: INO
1.2.7.0.1 INO2 (yeast).
1.2.7.0.2 INO4 (yeast).
1.2.8 Family: HLH domain only
1.2.8.0.1 Emc (fruit fly).
1.2.8.0.2 Id1 (mouse); Id1 (human).
1.2.8.0.3 Id2 (mouse); Id2 (human); Id2 (rat).
1.2.8.0.4 Id3 (mouse); Id3 (rat).
1.2.8.0.5 Id4 (mouse).
1.2.8.0.6 Olf-1
1.2.8.0.6.1 Olf-1 (rat).
1.2.8.0.6.2 EBF (mouse).
1.2.0 Family: Other bHLH factors
1.2.0.0.1 Delilah (fruit fly).
1.2.0.0.2 Lc (maize).
1.2.0.0.3 CBF1 (yeast).
1.3 Class: Helix-loop-helix / leucine zipper factors (bHLH-ZIP).
1.3.1 Family: Ubiquitous bHLH-ZIP factors
1.3.1.1 Subfamily: TFE3
1.3.1.1.1 TFE3
1.3.1.1.2 TFEB (human).
1.3.1.1.3 TFEC (rat).
1.3.1.1.4 Mi (human); Mi (mouse).
1.3.1.1.4.1 Mi (419 AA)
1.3.1.1.4.2 Mi (413 AA)
1.3.1.2 Subfamily: USF
1.3.1.2.1 SpF1 (sea urchin).
1.3.1.2.2 USF (human); USF (rat); USF (mouse); USF (Kenyan clawed frog).
1.3.1.2.3 USF2
1.3.1.3 Subfamily: SREBP
1.3.1.4 Subfamily: AP-4
1.3.2 Family: Cell-cycle controlling factors
1.3.2.1 Subfamily: Myc
1.3.2.1.1 c-Myc (human); c-Myc (chick); c-Myc (rat); c-Myc (mouse).
1.3.2.1.1.1 c-Myc 2 (c, h, m)
1.3.2.1.1.2 c-Myc 1 (c, h, m)
1.3.2.1.1.3 p64c-Myc (X)
1.3.2.1.2 N-Myc (mouse); N-Myc (human); N-Myc (canary); N-Myc (chick); N-Myc (clawed frog).
1.3.2.1.3 L-Myc
1.3.2.1.4 L-Myc2 (X) (clawed frog).
1.3.2.1.5 B-Myc (rat).
1.3.2.1.6 v-Myc (MC29).
1.3.2.2 Subfamily: Mad/Max
1.3.2.2.1 Max (mouse); Max ().
1.3.2.2.1.1 Max2 (human).
1.3.2.2.1.2 Max1 (human).
1.3.2.2.1.3 DeltaMax (human).
1.3.2.2.2 Mad1 (human); Mad1 (mouse).
1.3.2.2.3 Mxi1 (human).
1.3.2.2.3.1 Mxi1
1.3.2.2.3.2 Mxi1-WR
1.3.2.2.4 Mad3 (mouse).
1.3.2.2.5 Mad4 (mouse).
1.4 Class: NF-1
1.4.1 Family: NF-1
1.4.1.0.1 NF-1A /mNF-1B
1.4.1.0.2 NF-1B
1.4.1.0.3 NF-1C
1.4.1.0.4 NF-1X (chick).
1.4.1.0.4.1 NF-1X1 (clawed frog).
1.4.1.0.4.2 NF-1X2 (clawed frog).
1.4.1.0.4.3 NF-1X3 (clawed frog).
1.5 Class: RF-X
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
2.1.1.1 Subfamily: Corticoid receptors
2.1.1.1.1 GR (rat); GR (mouse); GR (human).
2.1.1.1.1.1 GR a
2.1.1.1.1.2 GR b
2.1.1.1.2 MR (rat); MR (human).
2.1.1.2 Subfamily: Progesterone receptor
2.1.1.2.1 PR (human); PR (rabbit); PR (chick).
2.1.1.2.1.1 PR-B
2.1.1.2.1.2 PR-A
2.1.1.3 Subfamily: Androgen receptor
2.1.1.3.1 AR (human); AR (mouse); AR (rat).
2.1.1.3.1.1 AR-A
2.1.1.3.1.2 AR-B
2.1.1.4 Subfamily: Estrogen receptor
2.1.1.4.1 ER (rat); ER (mouse); ER (human); ER (clawed frog); ER (chick).
2.1.1.4.1.1 ER (h) / ER-A (X)
2.1.1.4.1.2 ER (482 AA) (h)
2.1.1.4.1.3 ER-B (X)
2.1.2 Family: Thyroid hormone receptor-like factors
2.1.2.1 Subfamily: Retinoic acid receptors
2.1.2.2 Subfamily: Retinoid X receptors
2.1.2.3 Subfamily: Thyroid hormone receptors
2.1.2.4 Subfamily: Vitamin D receptor
2.1.2.5 Subfamily: NGFI-B
2.1.2.6 Subfamily: FTZ-F1
2.1.2.6.1 SF-1
2.1.2.6.1.1 FTZ-F1-like
2.1.2.6.1.2 ELP
2.1.2.6.2 FTZ-F1
2.1.2.6.2.1 alpha FTZ-F1
2.1.2.6.2.2 beta FTZ-F1
2.1.2.7 Subfamily: PPAR
2.1.2.7.3 PPARalpha (clawed frog).
2.1.2.7.4 PPARbeta (clawed frog).
2.1.2.7.5 PPARgamma (clawed frog).
2.1.2.7.5.1 PPARgamma2
2.1.2.7.5.2 PPARgamma1
2.1.2.8 Subfamily: EcR
2.1.2.8.1 EcR (fruit fly).
2.1.2.8.1.1 EcR A
2.1.2.8.1.2 EcR B1
2.1.2.8.1.3 EcR B2
2.1.2.9 Subfamily: ROR
2.1.2.9.1 HR3
2.1.2.9.2 RORalpha / RZRalpha
2.1.2.9.2.1 RORalpha1
2.1.2.9.2.2 RORalpha2
2.1.2.9.2.3 RORalpha3
2.1.2.9.3 RZRbeta
2.1.2.9.4 RORgamma
2.1.2.10 Subfamily: Tll / COUP
2.1.2.10.1 Tailless (fruit fly).
2.1.2.10.2 Tlx
2.1.2.10.3 TR2
2.1.2.10.3.1 TR2-11 (human).
2.1.2.10.3.2 TR2-5 (human).
2.1.2.10.3.3 TR2-9 (human).
2.1.2.10.3.4 TR2-7
2.1.2.10.4 TR4
2.1.2.10.5 COUP-TFI (rat); COUP-TFI (chick); COUP-TFI (human).
2.1.2.10.6 ARP-1 / COUP-TFII
2.1.2.11 Subfamily: HNF-4
2.1.2.12 Subfamily: CF1
2.1.2.12.1 CF1 (fruit fly).
2.1.2.13 Subfamily: Knirps
2.1.2.13.1 Knirps (fruit fly).
2.2 Class: diverse Cys4 zinc fingers.
2.2.1 Family: GATA-Factors
2.2.1.1 Subfamily: vertebral GATA-Factors
2.2.1.2 Subfamily: fungal metabolic regulators
2.2.1.2.1 AREA / NIT-2 (Neurospora crassa).
2.2.1.2.2 GLN3
2.2.1.2.3 UGA 43
2.2.1.2.4 NTL 1
2.2.2 Family: Trithorax
2.2.2.0.1 Ttx (fruit fly).
2.2.2.0.2 Hrx
2.2.0 Family: Other factors
2.3 Class: Cys2His2 zinc finger domain.
2.3.1 Family: Ubiquitous factors
2.3.1.0.1 TFIIIA
2.3.1.0.2 Sp1 (mouse); Sp1 (rat); Sp1 (human).
2.3.1.0.3 Sp3
2.3.1.0.4 Sp4
2.3.1.0.5 YY1 (human).
2.3.2 Family: Developmental / cell cycle regulators
2.3.2.1 Subfamily: Egr/Krox
2.3.2.2 Subfamily: Krueppel-like
2.3.2.2.1 Krueppel (fruit fly).
2.3.2.2.2 Hunchback (fruit fly).
2.3.2.2.3 Glass (fruit fly).
2.3.2.2.4 Odd-skipped (fruit fly).
2.3.2.2.5 Ovo (fruit fly).
2.3.2.2.6 Snail (fruit fly).
2.3.2.2.7 CF2
2.3.2.2.7.1 CF2-I (fruit fly).
2.3.2.2.7.2 CF2-II (fruit fly).
2.3.2.2.7.3 CF2-III (fruit fly).
2.3.2.2.8 Evi-1 (mouse).
2.3.2.2.9 Ikaros (mouse).
2.3.2.2.10 MZF-1 (human).
2.3.2.2.11 Sdc-1 (Caenorhabditis elegans).
2.3.2.2.12 NRSF
2.3.2.2.12.1 NRSF form 1
2.3.2.2.12.2 NRSF form 2
2.3.2.2.13 Gfi-1
2.3.2.3 Subfamily: GLI-like
2.3.2.3.1 GLI (human).
2.3.2.3.2 GLI3 (human).
2.3.2.3.3 WT1
2.3.2.3.3.1 WT1 +KTS (human).
2.3.2.3.3.2 WT1 -KTS (human).
2.3.2.3.3.3 WT1 I
2.3.2.3.3.4 WT1 I -KTS
2.3.2.3.3.5 WT1-del2
2.3.2.3.3.6 WT1-del2 I
2.3.2.3.4 Tra-1
2.3.2.3.5 RME1 (yeast).
2.3.2.3.6 BrlA (Aspergillus nidulans).
2.3.2.0 Subfamily: Others
2.3.2.0.1 Teashirt (fruit fly).
2.3.2.0.2 Tramtrack
2.3.2.0.3 RGM1
2.3.3 Family: Metabolic regulators in fungi
2.3.3.0.1 ACE2 (yeast).
2.3.3.0.2 ADR1 (yeast).
2.3.3.0.3 MIG1 (yeast).
2.3.3.0.4 CreA (Aspergillus nidulans).
2.3.3.0.5 MSN2 (yeast).
2.3.3.0.6 MSN4 (yeast).
2.3.4 Family: Large factors with NF-6B-like binding properties
2.3.5 Family: Viral regulators
2.4 Class: Cys6 cysteine-zinc cluster.
2.4.1 Family: Metabolic regulators in fungi
2.4.1.0.1 ARG RII (yeast).
2.4.1.0.2 CAT8
2.4.1.0.3 GAL4 (yeast).
2.4.1.0.4 HAP1 (yeast).
2.4.1.0.5 MAL63 (yeast).
2.4.1.0.6 LEU3 (yeast).
2.4.1.0.7 UGA3
2.4.1.0.8 qa-1F (Neurospora crassa).
2.4.1.0.9 UME6 (yeast).
2.4.1.0.10 AmdR (Aspergillus nidulans).
2.4.1.0.11 PUT3
2.5 Class: Zinc fingers of alternating composition
2.5.1 Family: Cx7Hx8Cx4C zinc fingers
2.5.2 Family: Cx2Hx4Hx4C zinc fingers
2.5.2.0.1 Byr3 (fission yeast).
3 Superclass: Helix-turn-helix
3.1 Class: Homeo domain.
3.1.1 Family: Homeo domain only
3.1.1.1 Subfamily: AbdB
3.1.1.2 Subfamily: Antp
3.1.1.2.1 abd-A (fruit fly).
3.1.1.2.2 Antp (fruit fly).
3.1.1.2.3 Ceh-15
3.1.1.2.4 Dfd (fruit fly).
3.1.1.2.5 Flh (zebra fish); Flh (clawed frog).
3.1.1.2.6 Ftz (fruit fly).
3.1.1.2.7 HOXA2 (mouse); HOXA2 (rat); HOXA2 (chick).
3.1.1.2.8 HOXB2
3.1.1.2.9 HOXA3 (mouse).
