PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Dca60817.1

Organism

Dianthus caryophyllus

Taxonomic ID

3570

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Caryophyllaceae; Caryophylleae; Dianthus

Family

HD-ZIP

Protein Properties

Length: 234aa MW: 25976.1 Da PI: 9.2848

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Dca60817.1	genome	DCA	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	59.2	6.8e-19	91	145	2	56
T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 rk+ +++keq +Lee F+++ +++ ++++ LAk+lgL rqV vWFqNrRa+ k Dca60817.1 91 RKKLRLSKEQSATLEESFKEHTTLNPKQKQALAKRLGLRARQVEVWFQNRRARTK 145 788899***********************************************98 PP
2	HD-ZIP_I/II	124.2	6e-40	91	180	1	91
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 +kk+rlskeq+++LEesF+e+++L+p++K++la++Lgl++rqv+vWFqnrRARtk+kq+E+d+e+Lk +y++l+een+rL+kev+eLr +l Dca60817.1 91 RKKLRLSKEQSATLEESFKEHTTLNPKQKQALAKRLGLRARQVEVWFQNRRARTKLKQTEVDCEFLKGCYEKLTEENRRLQKEVHELR-AL 180 69*************************************************************************************9.55 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04618	1.3E-10	7	63	IPR006712	HD-ZIP protein, N-terminal
Gene3D	G3DSA:1.10.10.60	2.4E-18	79	141	IPR009057	Homeodomain-like
SuperFamily	SSF46689	2.97E-18	80	148	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.637	87	147	IPR001356	Homeobox domain
SMART	SM00389	2.1E-15	89	151	IPR001356	Homeobox domain
CDD	cd00086	6.10E-16	91	148	No hit	No description
Pfam	PF00046	2.6E-16	91	145	IPR001356	Homeobox domain
PRINTS	PR00031	1.2E-5	118	127	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	122	145	IPR017970	Homeobox, conserved site
PRINTS	PR00031	1.2E-5	127	143	IPR000047	Helix-turn-helix motif
Pfam	PF02183	8.2E-11	147	181	IPR003106	Leucine zipper, homeobox-associated
SMART	SM00340	1.3E-24	147	190	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: 234 aa Download sequence Send to blast
MISPFNSFST SSTSLDRSLD TCPSHLRGIY VNKSTTNGGG VEEDAGVSSP KSTVSTVSGK 60 RSSGERDSGD EAERATSHGI SDEEDGGENS RKKLRLSKEQ SATLEESFKE HTTLNPKQKQ 120 ALAKRLGLRA RQVEVWFQNR RARTKLKQTE VDCEFLKGCY EKLTEENRRL QKEVHELRAL 180 KLSPQFYMHM TPPTTLTMCP SCERVAGPTP RPRPVNPWGG SLVSAPRPVD SPQL

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	89	95	SRKKLRL
2	139	147	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}.

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010677088.1	1e-103	PREDICTED: homeobox-leucine zipper protein HAT4 isoform X3
Refseq	XP_021757830.1	1e-103	homeobox-leucine zipper protein HAT4-like isoform X2
Swissprot	Q05466	5e-87	HAT4_ARATH; Homeobox-leucine zipper protein HAT4
TrEMBL	A0A218XTT1	1e-97	A0A218XTT1_PUNGR; Uncharacterized protein
STRING	XP_010677086.1	1e-100	(Beta vulgaris)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G16780.1	2e-83	homeobox protein 2

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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] 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] Müller-Moulé P, et al. YUCCA auxin biosynthetic genes are required for Arabidopsis shade avoidance. PeerJ, 2016. 4: p. e2574 [PMID:27761349] Ivarson E, et al. Effects of Overexpression of WRI1 and Hemoglobin Genes on the Seed Oil Content of Lepidium campestre. Front Plant Sci, 2016. 7: p. 2032 [PMID:28119714] Kasulin L, et al. A single haplotype hyposensitive to light and requiring strong vernalization dominates Arabidopsis thaliana populations in Patagonia, Argentina. Mol. Ecol., 2017. 26(13): p. 3389-3404 [PMID:28316114] Singh M,Gupta A,Singh D,Khurana JP,Laxmi A Arabidopsis RSS1 Mediates Cross-Talk Between Glucose and Light Signaling During Hypocotyl Elongation Growth. Sci Rep, 2017. 7(1): p. 16101 [PMID:29170398]