PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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: 320aa MW: 35114.3 Da PI: 9.635

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.0239s0043.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	54.7	1.8e-17	162	216	2	56
T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 rk+ +++keq +Lee F+ +++++ +++ LAk+l+L rqV vWFqNrRa+ k Cagra.0239s0043.1.p 162 RKKLRLSKEQALVLEETFKVHSTLNPKQKLVLAKQLNLRARQVEVWFQNRRARTK 216 788899***********************************************98 PP
2	HD-ZIP_I/II	121.5	4.1e-39	162	251	1	91
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLree 90 +kk+rlskeq+ +LEe+F+ +++L+p++K la++L+l++rqv+vWFqnrRARtk+kq+E+d+e+Lkr++d+l+een+rL+kev+eLr + Cagra.0239s0043.1.p 162 RKKLRLSKEQALVLEETFKVHSTLNPKQKLVLAKQLNLRARQVEVWFQNRRARTKLKQTEVDCEYLKRCCDNLTEENRRLQKEVSELR-A 250 69*************************************************************************************9.5 PP HD-ZIP_I/II 91 l 91 l Cagra.0239s0043.1.p 251 L 251 5 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04618	4.1E-32	1	127	IPR006712	HD-ZIP protein, N-terminal
Gene3D	G3DSA:1.10.10.60	8.1E-18	141	216	IPR009057	Homeodomain-like
SuperFamily	SSF46689	3.25E-18	150	219	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.811	158	218	IPR001356	Homeobox domain
SMART	SM00389	2.1E-14	160	222	IPR001356	Homeobox domain
CDD	cd00086	7.41E-14	162	219	No hit	No description
Pfam	PF00046	5.1E-15	162	216	IPR001356	Homeobox domain
PROSITE pattern	PS00027	0	193	216	IPR017970	Homeobox, conserved site
Pfam	PF02183	1.6E-11	218	252	IPR003106	Leucine zipper, homeobox-associated
SMART	SM00340	2.9E-26	218	261	IPR003106	Leucine zipper, homeobox-associated

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009641	Biological Process	shade avoidance
GO:0009725	Biological Process	response to hormone
GO:0010218	Biological Process	response to far red light
GO:0005634	Cellular Component	nucleus
GO:0009506	Cellular Component	plasmodesma
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 320 aa Download sequence Send to blast
MGERDDGLGL SLSLGNSSQL KEPSLRLNLT PFTASTSSSF PPHMHNQINN NSHPQKIHHN 60 SWTHLFQSSG IKRTTAERNS DAGSFLRSFD VNRAPSSSVA VVNLEEEAAV VSSPNSTVSS 120 LSGNKRDLAA ARGGDEHEAE RASCSRGGGS DDEDCGNGDG SRKKLRLSKE QALVLEETFK 180 VHSTLNPKQK LVLAKQLNLR ARQVEVWFQN RRARTKLKQT EVDCEYLKRC CDNLTEENRR 240 LQKEVSELRA LKLSPHLYMH MTPPTTLTMC PSCERVSSTS SANASIAPPP PPATTVVGRP 300 SPQRSTHWTA ISLQQRPGR*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	160	166	SRKKLRL
2	210	218	RRARTKLKQ

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Cagra.0239s0043.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By transition from light 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	AJ441251	0.0	AJ441251.1 Arabidopsis thaliana mRNA for homeodomain-leucine zipper protein ATHB4 (Athb4 gene).

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006294614.1	0.0	homeobox-leucine zipper protein ATHB-4 isoform X2
Swissprot	P92953	1e-170	ATHB4_ARATH; Homeobox-leucine zipper protein ATHB-4
TrEMBL	R0FX19	0.0	R0FX19_9BRAS; Uncharacterized protein
STRING	Cagra.0239s0043.1.p	0.0	(Capsella grandiflora)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2577	27	72

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G44910.1	1e-137	homeobox-leucine zipper protein 4

Link Out ? help Back to Top
Phytozome	Cagra.0239s0043.1.p

Publications ? help Back to Top
Carabelli M,Turchi L,Ruzza V,Morelli G,Ruberti I Homeodomain-Leucine Zipper II family of transcription factors to the limelight: central regulators of plant development. Plant Signal Behav, 2014. [PMID:23838958] Francisco M, et al. Genome Wide Association Mapping in Arabidopsis thaliana Identifies Novel Genes Involved in Linking Allyl Glucosinolate to Altered Biomass and Defense. Front Plant Sci, 2016. 7: p. 1010 [PMID:27462337] Gallemí M, et al. A non-DNA-binding activity for the ATHB4 transcription factor in the control of vegetation proximity. New Phytol., 2017. 216(3): p. 798-813 [PMID:28805249]