Carbohydrate-responsive element-binding protein (ChREBP) (Class D basic helix-loop-helix protein 14) (bHLHd14) (MLX interactor) (MLX-interacting protein-like) (WS basic-helix-loop-helix leucine zipper protein) (WS-bHLH) (Williams-Beuren syndrome chromosomal region 14 protein)

Carbohydrate-responsive element-binding protein (ChREBP) (MLX interactor) (MLX-interacting protein-like) (Williams-Beuren syndrome chromosomal region 14 protein homolog)


Motor neuron and pancreas homeobox protein 1 (Homeobox protein HB9)


Homeobox protein MSX-1 (Homeobox protein Hox-7) (Msh homeobox 1-like protein)

Homeobox protein MSX-1 (Homeobox protein Hox-7) (Hox-7.1) (Msh homeobox 1-like protein)


Homeobox protein MSX-2 (Homeobox protein Hox-8)

Homeobox protein MSX-2 (Homeobox protein Hox-8-1)


Metal regulatory transcription factor 1 (MRE-binding transcription factor) (Transcription factor MTF-1)


Musculin (Activated B-cell factor 1) (ABF-1) (Class A basic helix-loop-helix protein 22) (bHLHa22)


Myb-related protein B (B-Myb) (Myb-like protein 2)


Myogenic factor 6 (Myf-6) (Class C basic helix-loop-helix protein 4) (bHLHc4) (Muscle-specific regulatory factor 4)

Myogenic factor 6 (Myf-6) (Herculin) (Muscle-specific regulatory factor 4)


Nuclear factor of activated T-cells, cytoplasmic 4 (NF-ATc4) (NFATc4) (T-cell transcription factor NFAT3) (NF-AT3)


beta-Hairpin exposed by an alpha/beta-scaffold

Nuclear factor 1 X-type (NF1-X) (Nuclear factor 1/X) (CCAAT-box-binding transcription factor) (CTF) (Nuclear factor I/X) (NF-I/X) (NFI-X) (TGGCA-binding protein)


Neurogenin-1 (NGN-1) (Class A basic helix-loop-helix protein 6) (bHLHa6) (Neurogenic basic-helix-loop-helix protein) (Neurogenic differentiation factor 3) (NeuroD3)

Neurogenin-1 (NGN-1) (Helix-loop-helix protein mATH-4C) (mATH4C) (Neurogenic basic-helix-loop-helix protein) (Neurogenic differentiation factor 3) (NeuroD3)


Homeobox protein Nkx-2.3 (Homeobox protein NK-2 homolog C)

Homeobox protein Nkx-2.3 (Homeobox protein NK-2 homolog 3) (Homeobox protein NK-2 homolog C) (Nkx2-C)


Homeobox protein Nkx-2.8 (Homeobox protein NK-2 homolog H) (Homeobox protein Nkx-2.9)


Neuronal PAS domain-containing protein 2 (Neuronal PAS2) (Basic-helix-loop-helix-PAS protein MOP4) (Class E basic helix-loop-helix protein 9) (bHLHe9) (Member of PAS protein 4) (PAS domain-containing protein 4)


Nuclear receptor subfamily 1 group I member 2 (Orphan nuclear receptor PAR1) (Orphan nuclear receptor PXR) (Pregnane X receptor) (Steroid and xenobiotic receptor) (SXR)

Nuclear receptor subfamily 1 group I member 2 (Orphan nuclear receptor PXR) (Pregnane X receptor)


Nuclear receptor subfamily 2 group E member 1 (Nuclear receptor TLX) (Protein tailless homolog) (Tll) (hTll)

Nuclear receptor subfamily 2 group E member 1 (Nuclear receptor TLX) (Protein tailless homolog) (Tll) (mTll)


Nuclear receptor subfamily 4 group A member 2 (Immediate-early response protein NOT) (Orphan nuclear receptor NURR1) (Transcriptionally-inducible nuclear receptor)

Nuclear receptor subfamily 4 group A member 2 (NUR-related factor 1) (Orphan nuclear receptor NURR1)


Neural retina-specific leucine zipper protein (NRL)


Oligodendrocyte transcription factor 1 (Oligo1) (Class B basic helix-loop-helix protein 6) (bHLHb6) (Class E basic helix-loop-helix protein 21) (bHLHe21)

Oligodendrocyte transcription factor 1 (Oligo1) (Oligodendrocyte-specific bHLH transcription factor 1)


Oligodendrocyte transcription factor 3 (Oligo3) (Class B basic helix-loop-helix protein 7) (bHLHb7) (Class E basic helix-loop-helix protein 20) (bHLHe20)

Oligodendrocyte transcription factor 3 (Oligo3) (Class B basic helix-loop-helix protein 7) (bHLHb7) (Oligodendrocyte-specific bHLH transcription factor 3)


One cut domain family member 3 (One cut homeobox 3) (Transcription factor ONECUT-3) (OC-3)


Other with up to three adjacent zinc fingers


Homeobox protein OTX1 (Orthodenticle homolog 1)


Putative transcription factor Ovo-like 1 (hOvo1)

Putative transcription factor Ovo-like 1 (mOvo1) (mOvo1a)


Pituitary-specific positive transcription factor 1 (PIT-1) (Growth hormone factor 1) (GHF-1)


Pituitary homeobox 2 (ALL1-responsive protein ARP1) (Homeobox protein PITX2) (Paired-like homeodomain transcription factor 2) (RIEG bicoid-related homeobox transcription factor) (Solurshin)

Pituitary homeobox 2 (ALL1-responsive protein ARP1) (BRX1 homeoprotein) (Homeobox protein PITX2) (Orthodenticle-like homeobox 2) (Paired-like homeodomain transcription factor 2) (Paired-like homeodomain transcription factor Munc 30) (Solurshin)


Pituitary homeobox 3 (Homeobox protein PITX3) (Paired-like homeodomain transcription factor 3)


Homeobox protein PKNOX2 (Homeobox protein PREP-2) (PBX/knotted homeobox 2)


POU domain, class 3, transcription factor 4 (Brain-specific homeobox/POU domain protein 4) (Brain-4) (Brn-4) (Octamer-binding protein 9) (Oct-9) (Octamer-binding transcription factor 9) (OTF-9)


POU domain, class 4, transcription factor 1 (Brain-specific homeobox/POU domain protein 3A) (Brain-3A) (Brn-3A) (Homeobox/POU domain protein RDC-1) (Oct-T1)

POU domain, class 4, transcription factor 1 (Brain-specific homeobox/POU domain protein 3A) (Brain-3A) (Brn-3A) (Brn-3.0)


POU domain, class 4, transcription factor 2 (Brain-specific homeobox/POU domain protein 3B) (Brain-3B) (Brn-3B) (Brn-3.2)


POU domain, class 4, transcription factor 3 (Brain-specific homeobox/POU domain protein 3C) (Brain-3C) (Brn-3C) (Brn-3.1)


POU domain, class 6, transcription factor 1 (Brain-specific homeobox/POU domain protein 5) (Brain-5) (Brn-5) (mPOU homeobox protein)

POU domain, class 6, transcription factor 1 (Octamer-binding transcription factor EMB) (Transcription regulatory protein MCP-1)


POU domain, class 6, transcription factor 2 (Retina-derived POU domain factor 1) (RPF-1)


Prospero homeobox protein 1 (Homeobox prospero-like protein PROX1) (PROX-1)


Paired mesoderm homeobox protein 1 (Homeobox protein PHOX1) (Paired-related homeobox protein 1) (PRX-1)

Paired mesoderm homeobox protein 1 (Homeobox protein K-2) (Homeobox protein mHox) (Paired-related homeobox protein 1) (PRX-1)


Paired mesoderm homeobox protein 2 (Paired-related homeobox protein 2) (PRX-2)

Paired mesoderm homeobox protein 2 (PRX-2) (Homeobox protein S8)


Transcription factor RFX4 (Regulatory factor X 4) (Testis development protein NYD-SP10)


Nuclear receptor ROR-beta (Nuclear receptor RZR-beta) (Nuclear receptor subfamily 1 group F member 2) (Retinoid-related orphan receptor-beta)


Retinal homeobox protein Rx (Retina and anterior neural fold homeobox protein)


Short stature homeobox protein 2 (Homeobox protein Og12X) (Paired-related homeobox protein SHOT)

Short stature homeobox protein 2 (Homeobox protein Og12X) (OG-12) (Paired family homeodomain protein Prx3)


Homeobox protein SIX3 (Sine oculis homeobox homolog 3)


Homeobox protein SIX6 (Homeodomain protein OPTX2) (Optic homeobox 2) (Sine oculis homeobox homolog 6)

Homeobox protein SIX6 (Optic homeobox 2) (Sine oculis homeobox homolog 6) (Six9 protein)


SKI family transcriptional corepressor 1


SKI family transcriptional corepressor 2


Mothers against decapentaplegic homolog 5 (MAD homolog 5) (Mothers against DPP homolog 5) (JV5-1) (SMAD family member 5) (SMAD 5) (Smad5) (hSmad5)

Mothers against decapentaplegic homolog 5 (MAD homolog 5) (Mothers against DPP homolog 5) (Dwarfin-C) (Dwf-C) (SMAD family member 5) (SMAD 5) (Smad5) (mSmad5)


Zinc finger protein SNAI3 (Protein snail homolog 3) (Zinc finger protein 293)

Zinc finger protein SNAI3 (Protein snail homolog 3) (Snail-related gene from muscle cells) (Zinc finger protein 293)


Spermatogenesis- and oogenesis-specific basic helix-loop-helix-containing protein 2


Other all-alpha-helical DNA-binding domains

High-mobility group (HMG) domain factors


Transcription factor SOX-12 (Protein SOX-22)


Transcription factor SOX-14 (Protein SOX-28)


Transcription factor Sp8 (Specificity protein 8)


Sex-determining region Y protein (Testis-determining factor)


T-box transcription factor TBX1 (T-box protein 1) (Testis-specific T-box protein)


T-box transcription factor TBX15 (T-box protein 15) (T-box transcription factor TBX14) (T-box protein 14)

T-box transcription factor TBX15 (T-box protein 15) (MmTBx8) (T-box transcription factor TBX14) (T-box protein 14)


T-box transcription factor TBX18 (T-box protein 18)


T-box transcription factor TBX2 (T-box protein 2)


Alpha-globin transcription factor CP2 (SAA3 enhancer factor) (Transcription factor LSF)


Transcription factor EC (TFE-C) (Class E basic helix-loop-helix protein 34) (bHLHe34) (Transcription factor EC-like) (hTFEC-L)


T-cell leukemia homeobox protein 2 (Homeobox protein Hox-11L1) (Neural crest homeobox protein)

T-cell leukemia homeobox protein 2 (Enteric neuron homeobox protein) (Homeobox TLX-2) (Homeobox protein Hox-11L1) (Hox11L.1) (PMUR10F)


T-cell leukemia homeobox protein 3 (Homeobox protein Hox-11L2)

T-cell leukemia homeobox protein 3 (Homeobox TLX-3) (Homeobox protein Hox-11L2) (Respiratory neuron homeobox protein)


Upstream-binding protein 1 (Transcription factor LBP-1)

Upstream-binding protein 1 (Nuclear factor 2d9) (NF2d9)


Homeobox protein unc-4 homolog (Homeobox protein Uncx4.1)


Ventral anterior homeobox 2 (Ventral retina homeodomain protein)


Visual system homeobox 1 (Homeodomain protein RINX) (Retinal inner nuclear layer homeobox protein) (Transcription factor VSX1)


Y-box-binding protein 1 (YB-1) (CCAAT-binding transcription factor I subunit A) (CBF-A) (DNA-binding protein B) (DBPB) (Enhancer factor I subunit A) (EFI-A) (Nuclease-sensitive element-binding protein 1) (Y-box transcription factor)


Zinc finger and BTB domain-containing protein 20 (Dendritic-derived BTB/POZ zinc finger protein) (Zinc finger protein 288)

Zinc finger and BTB domain-containing protein 20 (BTB/POZ domain zinc finger factor HOF) (Zinc finger protein 288)


Zinc finger and BTB domain-containing protein 22 (Protein BING1) (Zinc finger and BTB domain-containing protein 22A) (Zinc finger protein 297)

Zinc finger and BTB domain-containing protein 22 (Protein BING1) (Zinc finger protein 297)


Zinc finger and BTB domain-containing protein 43 (Zinc finger and BTB domain-containing protein 22B) (Zinc finger protein 297B) (ZnF-x)

Zinc finger and BTB domain-containing protein 43 (Zinc finger protein 297B)


Zinc finger and BTB domain-containing protein 45 (Zinc finger protein 499)


Zinc finger and BTB domain-containing protein 7B (Krueppel-related zinc finger protein cKrox) (hcKrox) (T-helper-inducing POZ/Krueppel-like factor) (Zinc finger and BTB domain-containing protein 15) (Zinc finger protein 67 homolog) (Zfp-67) (Zinc finger protein 857B) (Zinc finger protein Th-POK)

Zinc finger and BTB domain-containing protein 7B (Krueppel-related zinc finger protein cKrox) (c-Krox) (T-helper-inducing POZ/Krueppel-like factor) (Zinc finger protein 67) (Zfp-67) (Zinc finger protein Th-POK)


Zinc finger and BTB domain-containing protein 7C (Affected by papillomavirus DNA integration in ME180 cells protein 1) (APM-1) (Zinc finger and BTB domain-containing protein 36) (Zinc finger protein 857C)

Zinc finger and BTB domain-containing protein 7C (Zinc finger and BTB domain-containing protein 36)


Zinc finger protein 41 (Zfp-41) (CtFIN92)


Zinc finger protein ZIC 4 (Zinc finger protein of the cerebellum 4)


Zinc finger protein 276 (Zfp-276) (Zinc finger protein 477)


Zinc finger protein 296 (ZFP296) (Zinc finger protein 342)

Zinc finger protein 296 (Hepatocellular carcinoma-associated antigen MHCA108)


Zinc finger protein 410 (Another partner for ARF 1) (Zinc finger protein APA-1)


Zinc finger protein 580 (LDL-induced EC protein)


Zinc finger protein 771 (Mesenchymal stem cell protein DSC43)


Zinc finger protein 787 (TTF-I-interacting peptide 20)


Zinc finger protein 32 (C2H2-546) (Zinc finger protein KOX30)

Zinc finger protein 32 (Zinc finger protein 637)


Zinc finger and SCAN domain containing protein 4C

Zinc finger and SCAN domain-containing protein 4 (Zinc finger protein 494)