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

GSBRNA2T00055805001

Common Name

GSBRNA2T00055805001, LOC106382896

Organism

Brassica napus

Taxonomic ID

3708

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: 311aa MW: 34480.4 Da PI: 4.5092

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00055805001	genome	Genoscope	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 GSBRNA2T00055805001 73 KKRRLSVVQVKALEKNFEIDNKLEPERKVKLAQELGLQPRQVAIWFQNRRARWK 126 55689999*********************************************9 PP
2	HD-ZIP_I/II	126.5	1.1e-40	72	164	1	93
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLree 90 ekkrrls qvk+LE++Fe ++kLeperKv+la+eLglqprqva+WFqnrRAR+ktkqlE+dy +Lk+++d+lk+++++L+++++ L +e GSBRNA2T00055805001 72 EKKRRLSVVQVKALEKNFEIDNKLEPERKVKLAQELGLQPRQVAIWFQNRRARWKTKQLERDYGVLKSNFDSLKRSRDSLQRDNDYLLAE 161 69**************************************************************************************99 PP HD-ZIP_I/II 91 lke 93 +ke GSBRNA2T00055805001 162 IKE 164 987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	3.29E-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	6.00E-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	3.9E-16	128	169	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: 311 aa Download sequence Send to blast
MKRSRGSSDS LSGFLPICHS TADKQLSPRP TATGFLYPGG AGDYSQMFDG LEEDGSLEDI 60 GVGHASSTAA AEKKRRLSVV QVKALEKNFE IDNKLEPERK VKLAQELGLQ PRQVAIWFQN 120 RRARWKTKQL ERDYGVLKSN FDSLKRSRDS LQRDNDYLLA EIKELRAKLD VEGTCGNNGN 180 AVTEETDVVK TVETVAFQTV IANDEVLELS QCPPLPREAQ ASELAYEMFS IFPRAESFRE 240 DPADSSDSSA ILNEEYSPTA 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
Bna.8433	0.0	seed

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00055805001

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	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AF325054	1e-174	AF325054.2 Arabidopsis thaliana AT5g65310 (AT5g65310/MNA5_4) mRNA, complete cds.
GenBank	AY074293	1e-174	AY074293.1 Arabidopsis thaliana putative homeobox-leucine zipper protein ATHB-5 (At5g65310) mRNA, complete cds.
GenBank	AY091340	1e-174	AY091340.1 Arabidopsis thaliana putative homeobox-leucine zipper protein ATHB-5 (HD-zip protein ATHB-5) (At5g65310) mRNA, complete cds.
GenBank	X67033	1e-174	X67033.1 A.thaliana mRNA Athb-5.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013678431.1	0.0	homeobox-leucine zipper protein ATHB-5
Swissprot	P46667	1e-161	ATHB5_ARATH; Homeobox-leucine zipper protein ATHB-5
TrEMBL	A0A078H8T3	0.0	A0A078H8T3_BRANA; BnaC02g43700D protein
STRING	Bo00615s120.1	0.0	(Brassica oleracea)

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-160	homeobox protein 5

Link Out ? help Back to Top
Entrez Gene	106382896

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] Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] 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]