PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Phaseolus

Family

HD-ZIP

Protein Properties

Length: 202aa MW: 22988.4 Da PI: 9.6255

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Phvul.003G138200.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	56	7e-18	73	127	2	56
T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 rk+ +++k+q Le+ F+ + +++ +++ LA++l+L++rqV vWFqNrRa+ k Phvul.003G138200.1 73 RKKLRLSKDQSSMLENSFKLHTTLNPVQKQALAHQLKLKTRQVEVWFQNRRARTK 127 788899***********************************************98 PP
2	HD-ZIP_I/II	105.3	4.8e-34	73	161	1	90
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLree 90 +kk+rlsk+q+++LE+sF+ +++L+p +K++la++L+l++rqv+vWFqnrRARtk+kq+E++ e Lk+++++l++en+rL+ke +e+r + Phvul.003G138200.1 73 RKKLRLSKDQSSMLENSFKLHTTLNPVQKQALAHQLKLKTRQVEVWFQNRRARTKLKQTEVEREWLKKQCQNLSDENKRLKKELQEVR-A 161 69***********************************************************************************998.4 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	2.3E-17	54	130	IPR009057	Homeodomain-like
SuperFamily	SSF46689	5.99E-18	58	130	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.73	69	129	IPR001356	Homeobox domain
SMART	SM00389	4.3E-14	71	133	IPR001356	Homeobox domain
Pfam	PF00046	2.9E-15	73	127	IPR001356	Homeobox domain
CDD	cd00086	1.95E-11	74	130	No hit	No description
PROSITE pattern	PS00027	0	104	127	IPR017970	Homeobox, conserved site
SMART	SM00340	1.1E-12	129	172	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: 202 aa Download sequence Send to blast
MEDAEECITG LCLGLGMGGH VPIKGKQKEK RPVACLDLAF ELCPKGEAIN LNHDKVESTD 60 SDNDNSNNNN RSRKKLRLSK DQSSMLENSF KLHTTLNPVQ KQALAHQLKL KTRQVEVWFQ 120 NRRARTKLKQ TEVEREWLKK QCQNLSDENK RLKKELQEVR ALKVGCIQLS KTATLTMCSS 180 CEKLVKLNEE KKNNIESEGR N*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	70	76	RSRKKLR
2	71	77	SRKKLRL
3	121	129	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Phvul.003G138200.1

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	KT031169	1e-125	KT031169.1 Glycine max clone HN_CCL_118 homeodomain/HOMEOBOX transcription factor (Glyma13g00310.1) mRNA, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_007154673.1	1e-144	hypothetical protein PHAVU_003G138200g
Swissprot	Q05466	2e-45	HAT4_ARATH; Homeobox-leucine zipper protein HAT4
TrEMBL	V7C925	1e-143	V7C925_PHAVU; Uncharacterized protein
STRING	XP_007154673.1	1e-144	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF5664	28	51

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G37790.1	2e-38	HD-ZIP family protein

Link Out ? help Back to Top
Phytozome	Phvul.003G138200.1
Entrez Gene	18634846

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]