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_016489981.1

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: 277aa MW: 31409.4 Da PI: 8.4034

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_016489981.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	58	1.6e-18	118	172	2	56
T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 rk+ ++tkeq +Lee F+++++++ +++ LAk+lgL rqV vWFqNrRa+ k XP_016489981.1 118 RKKLRLTKEQSSVLEENFKEHSTLNPKQKLALAKRLGLRARQVEVWFQNRRARTK 172 678899***********************************************98 PP
2	HD-ZIP_I/II	122.6	2e-39	118	207	1	91
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 +kk+rl+keq+++LEe+F+e+++L+p++K +la++Lgl++rqv+vWFqnrRARtk+kq+E+d+e+Lkr++++l+een+rL+kev+eLr +l XP_016489981.1 118 RKKLRLTKEQSSVLEENFKEHSTLNPKQKLALAKRLGLRARQVEVWFQNRRARTKLKQTEVDCEFLKRCVENLTEENRRLQKEVQELR-AL 207 69*************************************************************************************9.55 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04618	4.2E-27	2	92	IPR006712	HD-ZIP protein, N-terminal
Gene3D	G3DSA:1.10.10.60	4.1E-17	92	171	IPR009057	Homeodomain-like
SuperFamily	SSF46689	5.01E-18	107	175	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.2	114	174	IPR001356	Homeobox domain
SMART	SM00389	6.5E-15	116	178	IPR001356	Homeobox domain
Pfam	PF00046	4.3E-16	118	172	IPR001356	Homeobox domain
CDD	cd00086	6.88E-14	118	175	No hit	No description
PRINTS	PR00031	3.4E-5	145	154	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	149	172	IPR017970	Homeobox, conserved site
PRINTS	PR00031	3.4E-5	154	170	IPR000047	Helix-turn-helix motif
Gene3D	G3DSA:1.20.5.170	7.2E-4	172	206	No hit	No description
SMART	SM00340	1.8E-26	174	217	IPR003106	Leucine zipper, homeobox-associated
Pfam	PF02183	4.1E-10	174	208	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: 277 aa Download sequence Send to blast
MEDLGLSLSL SFPENRTVTP AHLNLIRKTS WTHSFPSSDR NSETCRVETR TFLKGIDVNR 60 LPATADTEEE AGVSSPNSTI SSVSGNKRNE REANCEEHDM ERACSRGISD EEDGENCRKK 120 LRLTKEQSSV LEENFKEHST LNPKQKLALA KRLGLRARQV EVWFQNRRAR TKLKQTEVDC 180 EFLKRCVENL TEENRRLQKE VQELRALKLS PQFYMQMTPP TTLTMCPSCE RVASGPTSTP 240 GNLRLGPPQQ LNLWATTPIS QGQSGQMDSY PTLARQK

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	166	174	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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	HG975518	9e-68	HG975518.1 Solanum lycopersicum chromosome ch06, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009788263.1	0.0	PREDICTED: homeobox-leucine zipper protein HAT4-like
Refseq	XP_016489981.1	0.0	PREDICTED: homeobox-leucine zipper protein HAT4-like
Swissprot	Q05466	1e-100	HAT4_ARATH; Homeobox-leucine zipper protein HAT4
TrEMBL	A0A1S4BM61	0.0	A0A1S4BM61_TOBAC; homeobox-leucine zipper protein HAT4-like
TrEMBL	A0A1U7XBL1	0.0	A0A1U7XBL1_NICSY; homeobox-leucine zipper protein HAT4-like
STRING	XP_009788263.1	0.0	(Nicotiana sylvestris)

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	7e-90	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]