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

Cla018880

Organism

Citrullus lanatus

Taxonomic ID

3654

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Citrullus

Family

HD-ZIP

Protein Properties

Length: 279aa MW: 32054.7 Da PI: 7.8879

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cla018880	genome	ICuGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	56.7	4e-18	146	200	2	56
T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 rk+ +++keq + Lee F+ + +++ ++++ LA++l+L++rqV vWFqNrRa+ k Cla018880 146 RKKLRLSKEQSTLLEESFKLHTTLNPAQKQALAQQLNLKTRQVEVWFQNRRARTK 200 788899***********************************************98 PP
2	HD-ZIP_I/II	118.2	4.6e-38	146	234	1	90
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLree 90 +kk+rlskeq++lLEesF+ +++L+p +K++la++L+l++rqv+vWFqnrRARtk+kq+E+d+e+Lk+++++l+een+rL+ke +eLr + Cla018880 146 RKKLRLSKEQSTLLEESFKLHTTLNPAQKQALAQQLNLKTRQVEVWFQNRRARTKLKQTEVDCEFLKKCCERLNEENRRLKKELHELR-S 234 69*************************************************************************************9.4 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	1.17E-17	134	203	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.2	142	202	IPR001356	Homeobox domain
SMART	SM00389	3.8E-15	144	206	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	1.8E-16	146	200	IPR009057	Homeodomain-like
Pfam	PF00046	1.9E-15	146	200	IPR001356	Homeobox domain
CDD	cd00086	5.43E-14	146	203	No hit	No description
PROSITE pattern	PS00027	0	177	200	IPR017970	Homeobox, conserved site
SMART	SM00340	8.4E-19	202	245	IPR003106	Leucine zipper, homeobox-associated
Pfam	PF02183	8.5E-9	202	235	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: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: 279 aa Download sequence Send to blast
MADHQDEVCN ISWLSLGLGF GEYVPKKMQK INNKQQQQQQ QQLSFTLIPK EELGINNNDD 60 DDANNNINME IDDEANSSEE DDHHLMKRIR SNNNIVNYDQ DSSFGIRRSS SDHHHHQYTN 120 NNNNIITTNH NYKGISSSSG SELRERKKLR LSKEQSTLLE ESFKLHTTLN PAQKQALAQQ 180 LNLKTRQVEV WFQNRRARTK LKQTEVDCEF LKKCCERLNE ENRRLKKELH ELRSLKLGAS 240 QLYIQLPKAA TLTICPSCDK ITRTAAANAA AVDANSPPQ

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	143	149	RERKKLR
2	194	202	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}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	LN681813	7e-87	LN681813.1 Cucumis melo genomic scaffold, anchoredscaffold00030.
GenBank	LN713256	7e-87	LN713256.1 Cucumis melo genomic chromosome, chr_2.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004150745.1	1e-144	PREDICTED: homeobox-leucine zipper protein HOX18-like
Swissprot	Q05466	8e-54	HAT4_ARATH; Homeobox-leucine zipper protein HAT4
TrEMBL	A0A0A0M012	1e-143	A0A0A0M012_CUCSA; Uncharacterized protein
STRING	XP_004150745.1	1e-143	(Cucumis sativus)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1144	33	107

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G16780.1	4e-43	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]