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_01656.1_g00010.1

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: 305aa MW: 34218.3 Da PI: 4.6491

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_01656.1_g00010.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	59.8	4.3e-19	71	124	3	56
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 k+++++ eq+++Le+ Fe ++++ e++ +LA++lgL+ rqV +WFqNrRa++k Rsa1.0_01656.1_g00010.1 71 KKRRLSVEQVKALEKNFEIDNKLEPERKVKLAQELGLQPRQVAIWFQNRRARWK 124 56689************************************************9 PP
2	HD-ZIP_I/II	130	9.3e-42	70	162	1	93
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekevee 86 ekkrrls eqvk+LE++Fe ++kLeperKv+la+eLglqprqva+WFqnrRAR+ktkqlE+dy +Lk+++d+lk+++++L+ ++++ Rsa1.0_01656.1_g00010.1 70 EKKRRLSVEQVKALEKNFEIDNKLEPERKVKLAQELGLQPRQVAIWFQNRRARWKTKQLERDYGVLKSNFDSLKRSRDSLQLDNDS 155 69********************************************************************************** PP HD-ZIP_I/II 87 Lreelke 93 Lr+e+ke Rsa1.0_01656.1_g00010.1 156 LRAEIKE 162 **997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	9.19E-20	62	128	IPR009057	Homeodomain-like
PROSITE profile	PS50071	17.799	66	126	IPR001356	Homeobox domain
SMART	SM00389	1.2E-18	69	130	IPR001356	Homeobox domain
CDD	cd00086	2.00E-18	71	127	No hit	No description
Pfam	PF00046	2.9E-16	71	124	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	2.7E-20	73	133	IPR009057	Homeodomain-like
PRINTS	PR00031	7.5E-6	97	106	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	101	124	IPR017970	Homeobox, conserved site
PRINTS	PR00031	7.5E-6	106	122	IPR000047	Helix-turn-helix motif
Pfam	PF02183	1.1E-16	126	167	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: 305 aa Download sequence Send to blast
MKRSRGSSDS LSGFLPICHS ATDKQLSPRP TATGFLYSGT GDYSPMFDCL EDGSLEDIAV 60 GHVSCTAATE KKRRLSVEQV KALEKNFEID NKLEPERKVK LAQELGLQPR QVAIWFQNRR 120 ARWKTKQLER DYGVLKSNFD SLKRSRDSLQ LDNDSLRAEI KELRAKLNVE GISRSNSNAS 180 TEESIFLKAD ETVMPNNEVL ELNQLPSQPL PHIPTEAPAS ELAYEMFSIF PRTEIFREDP 240 ADSSDSSAIL NEEYSPTAAE AAAATAVEMS TMGCFGHFVK MEEHEDLFSG EEACKLFADN 300 EQWYC

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	118	126	RRARWKTKQ
2	139	144	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_01656.1_g00010.1

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	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK353247	1e-168	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_018493585.1	0.0	PREDICTED: homeobox-leucine zipper protein ATHB-5-like
Swissprot	P46667	1e-161	ATHB5_ARATH; Homeobox-leucine zipper protein ATHB-5
TrEMBL	M4E6H3	0.0	M4E6H3_BRARP; Uncharacterized protein
STRING	Bra024377.1-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-162	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]