Collection of 196 putative Homeodomain human TFs out of 202 considered proteins

DBD Alignment (Click to open/enlarge)


Click to download Alignment and Tree
Description
Homeodomain factors comprise the second largest family with approximately 250 TFs. Homeodomains are composed of 60 amino acids and fold into a compact helix-turn-helix type of protein structure with three ?-helices, one of which is the recognition helix that can contact bases in the major groove. Besides the contacts made using the recognition helix, homeodomains also contact several backbone positions, and the N-terminal “tail” inserts commonly into the minor groove of the DNA. Many of the homeodomains have important developmental roles. 		Structure
Ensembl ID HGNC symbol DBD Family Is TF? TF Assessment Binding Mode Motif Status Notes Comments
ADNP Homeodomain Yes Likely to be sequence specific TF 1 Monomer or homomultimer No motif
ADNP2 Homeodomain Yes Likely to be sequence specific TF 1 Monomer or homomultimer No motif
ALX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
ALX3 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
ALX4 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
ANHX Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
ARGFX Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
ARX Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
BARHL1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
BARHL2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
BARX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro Has a putative AT-hook
BARX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro Has a putative AT-hook
BSX Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
CDX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
CDX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
CDX4 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
CERS2 Homeodomain No Unlikely to be sequence specific TF 4 Not a DNA binding protein No motif Unlikely to be a TF - homeodomain is heavily truncated at the N-terminus; and LASS2/CERS2 has previously been shown to be involved in ceramide synthesis (PMID:20937905).
CERS3 Homeodomain No Unlikely to be sequence specific TF 4 Not a DNA binding protein No motif Unlikely to be a TF - homeodomain is heavily truncated at the N-terminus; and LASS2/CERS2 has previously been shown to be involved in ceramide synthesis (PMID:20937905).
CERS4 Homeodomain No Unlikely to be sequence specific TF 4 Not a DNA binding protein No motif Unlikely to be a TF - homeodomain is heavily truncated at the N-terminus; and LASS2/CERS2 has previously been shown to be involved in ceramide synthesis (PMID:20937905).
CERS5 Homeodomain No Unlikely to be sequence specific TF 4 Not a DNA binding protein No motif Unlikely to be a TF - homeodomain is heavily truncated at the N-terminus; and LASS2/CERS2 has previously been shown to be involved in ceramide synthesis (PMID:20937905).
CERS6 Homeodomain No Unlikely to be sequence specific TF 4 Not a DNA binding protein No motif Unlikely to be a TF - homeodomain is heavily truncated at the N-terminus; and LASS2/CERS2 has previously been shown to be involved in ceramide synthesis (PMID:20937905).
CRX Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
DBX1 Homeodomain Yes Inferred motif 1 Monomer or homomultimer High-throughput in vitro
DBX2 Homeodomain Yes Inferred motif 1 Monomer or homomultimer High-throughput in vitro
DLX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
DLX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
DLX3 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
DLX4 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
DLX5 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
DLX6 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
DMBX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
DPRX Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
DRGX Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
DUX1 Homeodomain Yes Known motif 1 Monomer or homomultimer In vivo/Misc source Only known motifs are from Transfac or HocoMoco - origin is uncertain Not included in Ensembl. Binds GATCTGAGTCTAATTGAGAATTACTGTAC in EMSA (PMID: 9736770)
DUX3 Homeodomain Yes Known motif 1 Monomer or homomultimer In vivo/Misc source Only known motifs are from Transfac or HocoMoco - origin is uncertain Not included in Ensembl.
DUX4 Homeodomain Yes Known motif 1 Monomer or homomultimer In vivo/Misc source
DUXA Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
EMX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
EMX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
EN1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
EN2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
ESX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
EVX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
EVX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
GBX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
GBX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
GSC Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
GSC2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
GSX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
GSX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HDX Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HESX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HHEX Homeodomain Yes Inferred motif 1 Monomer or homomultimer High-throughput in vitro
HLX Homeodomain Yes Known motif 1 Monomer or homomultimer 100 perc ID - in vitro
HMBOX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HMX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HMX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HMX3 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HNF1A Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HNF1B Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOMEZ Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOPX Homeodomain No Unlikely to be sequence specific TF 4 Not a DNA binding protein No motif Lacks conserved residues required for DNA binding (PMID: 24287901)
HOXA1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXA10 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXA11 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro Also forms heterodimers with MEIS and PBX.
HOXA13 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXA2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXA3 Homeodomain Yes Known motif 1 Monomer or homomultimer 100 perc ID - in vitro
HOXA4 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro Has a putative AT-hook
HOXA5 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXA6 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXA7 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXA9 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXB1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXB13 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro Also forms heterodimers.
HOXB2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXB3 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXB4 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXB5 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXB6 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXB7 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXB8 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXB9 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXC10 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXC11 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXC12 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXC13 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXC4 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXC5 Homeodomain Yes Known motif 1 Monomer or homomultimer 100 perc ID - in vitro
HOXC6 Homeodomain Yes Known motif 1 Monomer or homomultimer 100 perc ID - in vitro
HOXC8 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXC9 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXD1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXD10 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXD11 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXD12 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXD13 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXD3 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXD4 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXD8 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
HOXD9 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
IRX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro Has a putative AT-hook
IRX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
IRX3 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
IRX4 Homeodomain Yes Known motif 1 Monomer or homomultimer 100 perc ID - in vitro
IRX5 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
IRX6 Homeodomain Yes Inferred motif 1 Monomer or homomultimer High-throughput in vitro
ISL1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
ISL2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
ISX Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
LBX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
LBX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
LEUTX Homeodomain Yes Likely to be sequence specific TF 1 Monomer or homomultimer No motif
LHX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
LHX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro Has a putative AT-hook
LHX3 Homeodomain Yes Known motif 1 Monomer or homomultimer 100 perc ID - in vitro
LHX4 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
LHX5 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
LHX6 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
LHX8 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
LHX9 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro Has a putative AT-hook
LMX1A Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
LMX1B Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
MEIS1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
MEIS2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
MEIS3 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
MEOX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
MEOX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
MIXL1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
MKX Homeodomain Yes Likely to be sequence specific TF 1 Monomer or homomultimer No motif Orthologous protein from fly is a TF that binds NWACA (PMID: 22923612).
MNX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
MSX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
MSX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
NANOG Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
NANOGNB Homeodomain Yes Likely to be sequence specific TF 1 Monomer or homomultimer No motif
NANOGP8 Homeodomain Yes Known motif 1 Monomer or homomultimer 100 perc ID - in vitro Listed as a pseudogene, but it encodes two protein products
NKX1-1 Homeodomain Yes Known motif 1 Monomer or homomultimer 100 perc ID - in vitro
NKX1-2 Homeodomain Yes Known motif 1 Monomer or homomultimer 100 perc ID - in vitro
NKX2-1 Homeodomain Yes Known motif 1 Monomer or homomultimer 100 perc ID - in vitro
NKX2-2 Homeodomain Yes Known motif 1 Monomer or homomultimer 100 perc ID - in vitro
NKX2-3 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
NKX2-4 Homeodomain Yes Known motif 1 Monomer or homomultimer 100 perc ID - in vitro
NKX2-5 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
NKX2-6 Homeodomain Yes Inferred motif 1 Monomer or homomultimer High-throughput in vitro
NKX2-8 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
NKX3-1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
NKX3-2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
NKX6-1 Homeodomain Yes Known motif 1 Monomer or homomultimer 100 perc ID - in vitro
NKX6-2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro Has a putative AT-hook
NKX6-3 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
NOBOX Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
NOTO Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
OTP Homeodomain Yes Known motif 1 Monomer or homomultimer 100 perc ID - in vitro
OTX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
OTX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
PBX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
PBX2 Homeodomain Yes Known motif 1 Monomer or homomultimer In vivo/Misc source Only known motifs are from Transfac or HocoMoco - origin is uncertain High sequence similarity to PBX1, PBX4, and drosophila exd, which have in vitro-derived motifs
PBX3 Homeodomain Yes Known motif 1 Monomer or homomultimer In vivo/Misc source High sequence similarity to PBX1, PBX4, and drosophila exd, which have in vitro-derived motifs
PBX4 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
PDX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
PHOX2A Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
PHOX2B Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
PITX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
PITX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
PITX3 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
PKNOX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
PKNOX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
PROP1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
PRRX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
PRRX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
RAX Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
RAX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
RHOXF1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
RHOXF2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
RHOXF2B Homeodomain Yes Inferred motif 1 Monomer or homomultimer High-throughput in vitro
SEBOX Homeodomain Yes Inferred motif 1 Monomer or homomultimer High-throughput in vitro Role in early development (PMID: 24018616).
SHOX Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
SHOX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
SIX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
SIX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
SIX3 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
SIX4 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
SIX5 Homeodomain Yes Known motif 1 Monomer or homomultimer In vivo/Misc source Only known motifs are from Transfac or HocoMoco - origin is uncertain
SIX6 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
TGIF1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
TGIF2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
TGIF2LX Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
TGIF2LY Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
TLX1 Homeodomain Yes Known motif 1 Monomer or homomultimer In vivo/Misc source Only known motifs are from Transfac or HocoMoco - origin is uncertain
TLX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
TLX3 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
TPRX1 Homeodomain Yes Likely to be sequence specific TF 1 Monomer or homomultimer No motif Expressed in early embryo as transcripts that contain a full homeodomain (PMID: 27412763).
UNCX Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
VAX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
VAX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
VENTX Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
VSX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
VSX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
ZFHX2 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro
ZHX1 Homeodomain Yes Known motif 1 Monomer or homomultimer High-throughput in vitro Has a putative AT-hook
ZHX2 Homeodomain Yes Likely to be sequence specific TF 1 Monomer or homomultimer No motif
ZHX3 Homeodomain Yes Likely to be sequence specific TF 1 Monomer or homomultimer No motif