PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
|
Home TFext BLAST Prediction Download Help About Links PlantRegMap |
Transcription Factor Information
Basic Information? help Back to Top | |||||||||
---|---|---|---|---|---|---|---|---|---|
TF ID | Carubv10005275m | ||||||||
Common Name | CARUB_v10005275mg | ||||||||
Organism | |||||||||
Taxonomic ID | |||||||||
Taxonomic Lineage |
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
|
||||||||
Family | HD-ZIP | ||||||||
Protein Properties | Length: 319aa MW: 35709.1 Da PI: 10.0092 | ||||||||
Description | HD-ZIP family protein | ||||||||
Gene Model |
|
Signature Domain? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | Homeobox | 60.7 | 2.3e-19 | 158 | 212 | 2 | 56 |
T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 rk+ +++k+q +Lee F+ +++++ ++++ LAk+lgL rqV vWFqNrRa+ k Carubv10005275m 158 RKKLRLSKDQSAILEETFKDHSTLNPKQKQALAKQLGLRARQVEVWFQNRRARTK 212 788899***********************************************98 PP | |||||||
2 | HD-ZIP_I/II | 124 | 6.9e-40 | 158 | 247 | 1 | 91 |
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 +kk+rlsk+q+++LEe+F+ +++L+p++K++la++Lgl++rqv+vWFqnrRARtk+kq+E+d+e+L+r++++l+een+rL+kev+eLr +l Carubv10005275m 158 RKKLRLSKDQSAILEETFKDHSTLNPKQKQALAKQLGLRARQVEVWFQNRRARTKLKQTEVDCEFLRRCCENLTEENRRLQKEVTELR-AL 247 69*************************************************************************************9.55 PP |
Protein Features ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Database | Entry ID | E-value | Start | End | InterPro ID | Description |
Pfam | PF04618 | 5.0E-27 | 31 | 136 | IPR006712 | HD-ZIP protein, N-terminal |
Gene3D | G3DSA:1.10.10.60 | 3.5E-18 | 127 | 215 | IPR009057 | Homeodomain-like |
PROSITE profile | PS50071 | 17.427 | 154 | 214 | IPR001356 | Homeobox domain |
SuperFamily | SSF46689 | 5.56E-18 | 156 | 223 | IPR009057 | Homeodomain-like |
SMART | SM00389 | 5.2E-16 | 156 | 218 | IPR001356 | Homeobox domain |
Pfam | PF00046 | 9.3E-17 | 158 | 212 | IPR001356 | Homeobox domain |
CDD | cd00086 | 2.78E-14 | 158 | 215 | No hit | No description |
PRINTS | PR00031 | 1.4E-5 | 185 | 194 | IPR000047 | Helix-turn-helix motif |
PROSITE pattern | PS00027 | 0 | 189 | 212 | IPR017970 | Homeobox, conserved site |
PRINTS | PR00031 | 1.4E-5 | 194 | 210 | IPR000047 | Helix-turn-helix motif |
Pfam | PF02183 | 9.7E-11 | 214 | 248 | IPR003106 | Leucine zipper, homeobox-associated |
SMART | SM00340 | 3.8E-26 | 214 | 257 | IPR003106 | Leucine zipper, homeobox-associated |
Gene Ontology ? help Back to Top | ||||||
---|---|---|---|---|---|---|
GO Term | GO Category | GO Description | ||||
GO:0008283 | Biological Process | cell proliferation | ||||
GO:0009641 | Biological Process | shade avoidance | ||||
GO:0009733 | Biological Process | response to auxin | ||||
GO:0009735 | Biological Process | response to cytokinin | ||||
GO:0009826 | Biological Process | unidimensional cell growth | ||||
GO:0010016 | Biological Process | shoot system morphogenesis | ||||
GO:0010017 | Biological Process | red or far-red light signaling pathway | ||||
GO:0010218 | Biological Process | response to far red light | ||||
GO:0045892 | Biological Process | negative regulation of transcription, DNA-templated | ||||
GO:0048364 | Biological Process | root development | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003700 | Molecular Function | transcription factor activity, sequence-specific DNA binding | ||||
GO:0042803 | Molecular Function | protein homodimerization activity | ||||
GO:0043565 | Molecular Function | sequence-specific DNA binding |
Sequence ? help Back to Top |
---|
Protein Sequence Length: 319 aa Download sequence Send to blast |
SLSISQKKEK SRKLYCKNRV FLFVPEKIKM MLEKDDLGLS LGLNYPKKQM NLNSNPSVSV 60 TPSSSSFGLL RRSSLNESFT SSVPNSDSSQ KEKRTFIRGI DVNRPPSTAE YGEEDAGVSS 120 PNSTVSSSTG KRSEREEDTD PQGSRGGISD DEDGDNSRKK LRLSKDQSAI LEETFKDHST 180 LNPKQKQALA KQLGLRARQV EVWFQNRRAR TKLKQTEVDC EFLRRCCENL TEENRRLQKE 240 VTELRALKLS PQFYMHMSPP TTLTMCPSCE HVSAPPPQQP PQAATSAQHH RGSLPVNAWA 300 QGTRISHGLT FDALRPRS* |
Nucleic Localization Signal ? help Back to Top | |||
---|---|---|---|
No. | Start | End | Sequence |
1 | 156 | 162 | SRKKLRL |
2 | 206 | 214 | RRARTKLKQ |
Functional Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | Probable transcription factor involved in the negative regulation of cell elongation and specific cell proliferation processes such as lateral root formation and secondary growth of the vascular system. Acts as mediator of the red/far-red light effects on leaf cell expansion in the shading response. Binds to the DNA sequence 5'-CAAT[GC]ATTG-3'. Negatively regulates its own expression. {ECO:0000269|PubMed:10477292, ECO:0000269|PubMed:11260495, ECO:0000269|PubMed:8449400}. |
Cis-element ? help Back to Top | |
---|---|
Source | Link |
PlantRegMap | Carubv10005275m |
Regulation -- Description ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Description | |||||
UniProt | INDUCTION: Rapidly and strongly induced by lowering the ratio of red to far-red light. {ECO:0000269|PubMed:8106086}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | |||
GenBank | AF375453 | 0.0 | AF375453.1 Arabidopsis thaliana AT4g16780/dl4415w mRNA, complete cds. | |||
GenBank | ATHHOMEOA | 0.0 | M90394.1 Arabidopsis thaliana heomeobox protein (HAT4) mRNA, complete cds. | |||
GenBank | X68145 | 0.0 | X68145.1 A.thaliana Athb-2 mRNA. |
Annotation -- Protein ? help Back to Top | |||||||
---|---|---|---|---|---|---|---|
Source | Hit ID | E-value | Description | ||||
Refseq | XP_006284142.2 | 0.0 | homeobox-leucine zipper protein HAT4 | ||||
Swissprot | Q05466 | 1e-178 | HAT4_ARATH; Homeobox-leucine zipper protein HAT4 | ||||
TrEMBL | R0GXM3 | 0.0 | R0GXM3_9BRAS; Uncharacterized protein (Fragment) | ||||
STRING | XP_006284142.1 | 0.0 | (Capsella rubella) |
Orthologous Group ? help Back to Top | |||
---|---|---|---|
Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Malvids | OGEM1563 | 26 | 90 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
---|---|---|---|---|---|---|
Hit ID | E-value | Description | ||||
AT4G16780.1 | 1e-162 | homeobox protein 2 |
Link Out ? help Back to Top | |
---|---|
Phytozome | Carubv10005275m |
Entrez Gene | 17879778 |