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

Rsa1.0_00073.1_g00023.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

HD-ZIP

Protein Properties

Length: 312aa MW: 34563.4 Da PI: 4.6341

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00073.1_g00023.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	59.1	7.3e-19	72	125	3	56
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 k+++++ +q+++Le+ Fe ++++ e++ +LA++lgL+ rqV +WFqNrRa++k Rsa1.0_00073.1_g00023.1 72 KKRRLSVTQVKALEKNFEIDNKLEPERKVKLAQELGLQPRQVAIWFQNRRARWK 125 5668999**********************************************9 PP
2	HD-ZIP_I/II	128.4	2.9e-41	71	163	1	93
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekevee 86 ekkrrls qvk+LE++Fe ++kLeperKv+la+eLglqprqva+WFqnrRAR+ktkqlE+dy +Lk+++d+lk+++++L++++++ Rsa1.0_00073.1_g00023.1 71 EKKRRLSVTQVKALEKNFEIDNKLEPERKVKLAQELGLQPRQVAIWFQNRRARWKTKQLERDYGVLKSNFDSLKRSRDSLQRDNDS 156 69********************************************************************************** PP HD-ZIP_I/II 87 Lreelke 93 L +e+ke Rsa1.0_00073.1_g00023.1 157 LLAEIKE 163 99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	2.8E-19	65	129	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.443	67	127	IPR001356	Homeobox domain
SMART	SM00389	6.2E-18	70	131	IPR001356	Homeobox domain
Pfam	PF00046	4.7E-16	72	125	IPR001356	Homeobox domain
CDD	cd00086	5.74E-18	72	128	No hit	No description
Gene3D	G3DSA:1.10.10.60	1.1E-19	74	134	IPR009057	Homeodomain-like
PRINTS	PR00031	7.8E-6	98	107	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	102	125	IPR017970	Homeobox, conserved site
PRINTS	PR00031	7.8E-6	107	123	IPR000047	Helix-turn-helix motif
Pfam	PF02183	3.0E-17	127	168	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: 312 aa Download sequence Send to blast
MKRSRGSSDS LSGFLPICHS TSDKQLSPRP TATGFLYPGA GDYSQMFDGL EEDGSLEDIG 60 VGHASSTAAA EKKRRLSVTQ VKALEKNFEI DNKLEPERKV KLAQELGLQP RQVAIWFQNR 120 RARWKTKQLE RDYGVLKSNF DSLKRSRDSL QRDNDSLLAE IKELRAKLDG EGTGVNNGNA 180 VTEETGVVKV LETVAYQTVI ANNEVLELSQ RPPPHIPTEA QASELAYEMF SIFPRTESFR 240 EDPADSSDSS AVLNEDYSPT AAAAAAAVEM STMGCFGQFV KMEEHEDLFS GEEACKLFAD 300 NEQWFCSGQW SS

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	119	127	RRARWKTKQ
2	140	145	DSLKRS

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	Rsa1.0_00073.1_g00023.1

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	AK353247	0.0	AK353247.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-23-D07.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018441050.1	0.0	PREDICTED: homeobox-leucine zipper protein ATHB-5
Swissprot	P46667	1e-170	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-171	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]