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

XP_016486992.1

Organism

Nicotiana tabacum

Taxonomic ID

4097

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

HD-ZIP

Protein Properties

Length: 300aa MW: 33944.3 Da PI: 6.7365

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_016486992.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	61.4	1.4e-19	134	188	2	56
T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 rk+ ++tk+q +Lee F+++++++ ++++ LAk+lgL rqV vWFqNrRa+ k XP_016486992.1 134 RKKLRLTKDQSAVLEESFKEHNTLNPKQKQALAKRLGLRPRQVEVWFQNRRARTK 188 678899***********************************************98 PP
2	HD-ZIP_I/II	128.9	2e-41	134	223	1	91
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 +kk+rl+k+q+++LEesF+e+++L+p++K++la++Lgl+prqv+vWFqnrRARtk+kq+E+d+e+Lkr++++l+een+rL+kev+eLr +l XP_016486992.1 134 RKKLRLTKDQSAVLEESFKEHNTLNPKQKQALAKRLGLRPRQVEVWFQNRRARTKLKQTEVDCEFLKRCCENLTEENRRLQKEVQELR-AL 223 69*************************************************************************************9.55 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04618	4.6E-30	1	111	IPR006712	HD-ZIP protein, N-terminal
SuperFamily	SSF46689	1.38E-18	128	191	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.378	130	190	IPR001356	Homeobox domain
SMART	SM00389	3.0E-17	132	194	IPR001356	Homeobox domain
CDD	cd00086	2.59E-15	134	191	No hit	No description
Gene3D	G3DSA:1.10.10.60	1.9E-18	134	188	IPR009057	Homeodomain-like
Pfam	PF00046	5.2E-17	134	188	IPR001356	Homeobox domain
PRINTS	PR00031	1.5E-5	161	170	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	165	188	IPR017970	Homeobox, conserved site
PRINTS	PR00031	1.5E-5	170	186	IPR000047	Helix-turn-helix motif
Pfam	PF02183	2.3E-11	190	224	IPR003106	Leucine zipper, homeobox-associated
SMART	SM00340	4.2E-27	190	233	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: 300 aa Download sequence Send to blast
MLENQDLGLS LSLGFPENKT TNPLQLNLIS SLVSSTSPSP SPFNLFQKTS WIDSFPSSDR 60 NLETCRTFLK GIDVNRIPTI TDAEEEEEEA GVSSPNSTIS SLSGNKRSER EINCEEELDC 120 CRGISDEEDG ETCRKKLRLT KDQSAVLEES FKEHNTLNPK QKQALAKRLG LRPRQVEVWF 180 QNRRARTKLK QTEVDCEFLK RCCENLTEEN RRLQKEVQEL RALKLSPQFY MQMTPPTTLT 240 MCPSCERVAG PPTPSPSGPT NVDPRVHQMG LAQQQRSMPF NLWATSPVPH RPINALNPRS

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	182	190	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_016486992.1	0.0	PREDICTED: homeobox-leucine zipper protein HAT4-like
Swissprot	Q05466	1e-106	HAT4_ARATH; Homeobox-leucine zipper protein HAT4
TrEMBL	A0A1S4BDQ8	0.0	A0A1S4BDQ8_TOBAC; homeobox-leucine zipper protein HAT4-like
STRING	XP_009590186.1	0.0	(Nicotiana tomentosiformis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA1118	24	85

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G16780.1	1e-104	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]