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

RrC547_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

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: 160aa MW: 18108.4 Da PI: 9.2155

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC547_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	61.4	1.3e-19	71	124	3	56
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 k+++++ eq+++Le+ Fe ++++ e++ +LA++lgL+ rqV +WFqNrRa++k RrC547_p1 71 KKRRLSVEQVKALEKNFEIDNKLEPERKVKLAQELGLQPRQVAIWFQNRRARWK 124 56689************************************************9 PP
2	HD-ZIP_I/II	130	9.4e-42	70	160	1	91
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreel 91 ekkrrls eqvk+LE++Fe ++kLeperKv+la+eLglqprqva+WFqnrRAR+ktkqlE+dy +Lk+++d+lk+++++L+ ++++Lr+e+ RrC547_p1 70 EKKRRLSVEQVKALEKNFEIDNKLEPERKVKLAQELGLQPRQVAIWFQNRRARWKTKQLERDYGVLKSNFDSLKRSRDSLQLDNDSLRAEV 160 69*************************************************************************************9875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF46689	2.26E-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	7.03E-18	71	127	No hit	No description
Pfam	PF00046	9.0E-17	71	124	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	7.8E-21	73	133	IPR009057	Homeodomain-like
PRINTS	PR00031	2.8E-6	97	106	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	101	124	IPR017970	Homeobox, conserved site
PRINTS	PR00031	2.8E-6	106	122	IPR000047	Helix-turn-helix motif
Pfam	PF02183	4.2E-14	126	160	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: 160 aa Download sequence Send to blast
MKRSRGSSDS LSGFLPICHS ATDKQLSPRP TATGFLYSGT GDYSPMFDCL EDGSLEDIAV 60 GHASCTAATE KKRRLSVEQV KALEKNFEID NKLEPERKVK LAQELGLQPR QVAIWFQNRR 120 ARWKTKQLER DYGVLKSNFD SLKRSRDSLQ LDNDSLRAEV

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}.

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-174	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	1e-114	PREDICTED: homeobox-leucine zipper protein ATHB-5-like
Swissprot	P46667	2e-94	ATHB5_ARATH; Homeobox-leucine zipper protein ATHB-5
TrEMBL	M4E6H3	1e-108	M4E6H3_BRARP; Uncharacterized protein
STRING	Bra024377.1-P	1e-108	(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-96	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]