PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

HD-ZIP

Protein Properties

Length: 287aa MW: 32143.1 Da PI: 6.6263

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc01g090460.2.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	57.3	2.7e-18	126	180	2	56
T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 rk+ +++keq +Lee F+++++++ +++ L+k+l+L rqV vWFqNrRa+ k Solyc01g090460.2.1 126 RKKLRLSKEQAAVLEETFKEHNTLNPKQKLALSKQLNLRPRQVEVWFQNRRARTK 180 788899***********************************************98 PP
2	HD-ZIP_I/II	126.1	1.5e-40	126	215	1	91
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 +kk+rlskeq+++LEe+F+e+++L+p++K +l+++L+l+prqv+vWFqnrRARtk+kq+E+d+e+Lkr++++l++en+rL+kev+eLr +l Solyc01g090460.2.1 126 RKKLRLSKEQAAVLEETFKEHNTLNPKQKLALSKQLNLRPRQVEVWFQNRRARTKLKQTEVDCEYLKRCCENLTDENRRLQKEVSELR-AL 215 69*************************************************************************************9.55 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51257	5	1	20	No hit	No description
Pfam	PF04618	1.0E-14	3	102	IPR006712	HD-ZIP protein, N-terminal
SuperFamily	SSF46689	5.99E-18	121	183	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	2.7E-17	122	185	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.925	122	182	IPR001356	Homeobox domain
SMART	SM00389	6.6E-15	124	186	IPR001356	Homeobox domain
CDD	cd00086	7.88E-15	126	183	No hit	No description
Pfam	PF00046	9.3E-16	126	180	IPR001356	Homeobox domain
PROSITE pattern	PS00027	0	157	180	IPR017970	Homeobox, conserved site
SMART	SM00340	9.0E-27	182	225	IPR003106	Leucine zipper, homeobox-associated
Pfam	PF02183	5.2E-11	182	216	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:0005634	Cellular Component	nucleus
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: 287 aa Download sequence Send to blast
MSSEKEDGLG LSLSLGIMSC PQNNHKTTPS LPLNLLPFMH HHQVSSGRKD EGGERVRGGI 60 DMNEPARMII ECDDEEDEEE DQVLMVSSPN STVSSVSGKR SHDREENEGE RATSSLEDDG 120 GDAAARKKLR LSKEQAAVLE ETFKEHNTLN PKQKLALSKQ LNLRPRQVEV WFQNRRARTK 180 LKQTEVDCEY LKRCCENLTD ENRRLQKEVS ELRALKLSPQ FYMNMSPPTT LTMCPQCERV 240 AVSSSSSSSS VVNATRAQNH QAPVPMNKPW AAMFASKTLD VQRSQM*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	174	182	RRARTKLKQ

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Les.5271	0.0	fruit\| leaf

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc01g090460.2.1

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	BT013613	0.0	Lycopersicon esculentum clone 132414F, mRNA sequence
GenBank	X91212	0.0	L.esculentum mRNA for HD-ZIP protein

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001234233.1	0.0	HD-ZIP protein
Swissprot	P92953	4e-85	ATHB4_ARATH; Homeobox-leucine zipper protein ATHB-4
TrEMBL	Q42437	0.0	Q42437_SOLLC; HD-ZIP protein
STRING	Solyc01g090460.2.1	0.0	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA1118	24	85
Representative plant	OGRP196	16	156

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G60390.1	4e-78	homeobox-leucine zipper protein 3

Link Out ? help Back to Top
Phytozome	Solyc01g090460.2.1
Entrez Gene	544105

Publications ? help Back to Top
Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments. Theor. Appl. Genet., 2005. 112(1): p. 72-84 [PMID:16208505] 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] Meissner R,Theres K Isolation and characterization of the tomato homeobox gene THOM1. Planta, 1995. 195(4): p. 541-7 [PMID:7766050]