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_009130506.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

HD-ZIP

Protein Properties

Length: 310aa MW: 34227.1 Da PI: 4.5375

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009130506.1	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	1.5e-18	73	126	3	56
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 k+++++ q+++Le+ Fe ++++ e++ +LA++lgL+ rqV +WFqNrRa++k XP_009130506.1 73 KKRRLSVVQVKALEKNFEIDNKLEPERKVKLAQELGLQPRQVAIWFQNRRARWK 126 55689999*********************************************9 PP
2	HD-ZIP_I/II	127.4	6e-41	72	164	1	93
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 ekkrrls qvk+LE++Fe ++kLeperKv+la+eLglqprqva+WFqnrRAR+ktkqlE+dy +Lk+++d+lk+++++L++++++L +e+ke XP_009130506.1 72 EKKRRLSVVQVKALEKNFEIDNKLEPERKVKLAQELGLQPRQVAIWFQNRRARWKTKQLERDYGVLKSNFDSLKRSRDSLQRDNDSLLAEIKE 164 69**************************************************************************************99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	3.22E-19	66	130	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.248	68	128	IPR001356	Homeobox domain
SMART	SM00389	5.4E-18	71	132	IPR001356	Homeobox domain
CDD	cd00086	2.99E-18	73	129	No hit	No description
Pfam	PF00046	9.6E-16	73	126	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	1.3E-19	75	135	IPR009057	Homeodomain-like
PRINTS	PR00031	7.7E-6	99	108	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	103	126	IPR017970	Homeobox, conserved site
PRINTS	PR00031	7.7E-6	108	124	IPR000047	Helix-turn-helix motif
Pfam	PF02183	3.0E-17	128	169	IPR003106	Leucine zipper, homeobox-associated

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009737	Biological Process	response to abscisic acid
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0042803	Molecular Function	protein homodimerization activity
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 310 aa Download sequence Send to blast
MKRSRGSSDS LSGFLPICHS TADKQLSPRP TATGFLYPGG AGDYSQMFDG LEEDGSLEDI 60 GVGHASSTAA AEKKRRLSVV QVKALEKNFE IDNKLEPERK VKLAQELGLQ PRQVAIWFQN 120 RRARWKTKQL ERDYGVLKSN FDSLKRSRDS LQRDNDSLLA EIKELRAKLD VEGTCGNNGN 180 AVTEETGVVK PVETVAFQTV IANNEVLELS QCPPLPGEAP ASELAYEMFS IFPRTESFRE 240 DPADSSDSSA VLNEEYSPTA AAATAVEMST MGCFGQFVKM EEHEDLFSGE EACKLFADNE 300 QWFCSGQWSS

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	120	128	RRARWKTKQ
2	141	146	DSLKRS

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.2958	0.0	bud\| leaf\| root

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Localized primarily to the hypocotyl of germinating seedlings. {ECO:0000269\|PubMed:12678559}.
Uniprot	TISSUE SPECIFICITY: Widely expressed. {ECO:0000269\|PubMed:16055682}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that acts as a positive regulator of ABA-responsiveness, mediating the inhibitory effect of ABA on growth during seedling establishment. Binds to the DNA sequence 5'-CAATNATTG-3'. {ECO:0000269\|PubMed:12678559}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00587	DAP	Transfer from AT5G65310	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009130506.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Down-regulated by abscisic acid (ABA) and by salt stress. {ECO:0000269\|PubMed:12678559, ECO:0000269\|PubMed:16055682}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF325054	0.0	AF325054.2 Arabidopsis thaliana AT5g65310 (AT5g65310/MNA5_4) mRNA, complete cds.
GenBank	AY074293	0.0	AY074293.1 Arabidopsis thaliana putative homeobox-leucine zipper protein ATHB-5 (At5g65310) mRNA, complete cds.
GenBank	AY091340	0.0	AY091340.1 Arabidopsis thaliana putative homeobox-leucine zipper protein ATHB-5 (HD-zip protein ATHB-5) (At5g65310) mRNA, complete cds.
GenBank	X67033	0.0	X67033.1 A.thaliana mRNA Athb-5.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009130506.1	0.0	PREDICTED: homeobox-leucine zipper protein ATHB-5-like
Refseq	XP_013678412.1	0.0	homeobox-leucine zipper protein ATHB-5-like
Swissprot	P46667	1e-165	ATHB5_ARATH; Homeobox-leucine zipper protein ATHB-5
TrEMBL	A0A398ANU2	0.0	A0A398ANU2_BRACM; Uncharacterized protein
TrEMBL	M4EST6	0.0	M4EST6_BRARP; Uncharacterized protein
STRING	Bra031866.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM12986	15	26

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G65310.1	1e-167	homeobox protein 5

Publications ? help Back to Top
Cassan-Wang H, et al. Identification of novel transcription factors regulating secondary cell wall formation in Arabidopsis. Front Plant Sci, 2013. 4: p. 189 [PMID:23781226] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Song L, et al. A transcription factor hierarchy defines an environmental stress response network. Science, 2017. [PMID:27811239] Stamm P, et al. The Transcription Factor ATHB5 Affects GA-Mediated Plasticity in Hypocotyl Cell Growth during Seed Germination. Plant Physiol., 2017. 173(1): p. 907-917 [PMID:27872245]