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

RrC5890_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: 221aa MW: 26023.2 Da PI: 5.707

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC5890_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	61.5	1.3e-19	56	109	4	57
-SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS Homeobox 4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 ++++t+eq++ Le F ++++ e++ ++A++lgL+ rqV vWFqNrR+++k+ RrC5890_p1 56 KRKLTDEQVNMLEMRFGDEHKLESERKDKIAAELGLDPRQVAVWFQNRRTRWKN 109 4589************************************************95 PP
2	HD-ZIP_I/II	118.1	5e-38	55	145	2	92
HD-ZIP_I/II 2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelk 92 +kr+l++eqv++LE+ F e+kLe+erK ++a eLgl+prqvavWFqnrR R+k+k+lE +y++Lk+a+d+++ +++rLe+ev +L+e+l RrC5890_p1 55 RKRKLTDEQVNMLEMRFGDEHKLESERKDKIAAELGLDPRQVAVWFQNRRTRWKNKRLEDEYNKLKNAHDNVVLDKCRLESEVLKLKEHLY 145 8**************************************************************************************9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50071	16.374	50	110	IPR001356	Homeobox domain
SMART	SM00389	6.4E-19	53	114	IPR001356	Homeobox domain
CDD	cd00086	1.12E-15	55	111	No hit	No description
SuperFamily	SSF46689	4.28E-17	56	118	IPR009057	Homeodomain-like
Pfam	PF00046	7.0E-17	56	109	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	2.2E-19	57	117	IPR009057	Homeodomain-like
PRINTS	PR00031	2.9E-5	81	90	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	85	108	IPR017970	Homeobox, conserved site
PRINTS	PR00031	2.9E-5	90	106	IPR000047	Helix-turn-helix motif

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 221 aa Download sequence Send to blast
MNHKVDDQNM GFISQLYPDV YTQIVPQGEV KPPKRRRKKR KVAVAAGDGS NCMLRKRKLT 60 DEQVNMLEMR FGDEHKLESE RKDKIAAELG LDPRQVAVWF QNRRTRWKNK RLEDEYNKLK 120 NAHDNVVLDK CRLESEVLKL KEHLYDAERE IQRLAERVEG CSSNSPVSSS VSIQHNETPF 180 FGDYEVEEDG DDYDNMVYPV PENTYIDHGE EWMNYQLNII F

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	32	39	PKRRRKKR
2	32	40	PKRRRKKRK
3	34	39	RRRKKR
4	34	40	RRRKKRK
5	38	57	KRKVAVAAGDGSNCMLRKRK
6	53	58	LRKRKL

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor. {ECO:0000250}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By abscisic acid (ABA) and by salt stress. {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	AC189549	1e-118	AC189549.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH005C21, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018449872.1	1e-166	PREDICTED: homeobox-leucine zipper protein ATHB-40-like
Swissprot	O23208	1e-119	ATB40_ARATH; Homeobox-leucine zipper protein ATHB-40
TrEMBL	A0A078GHI5	1e-128	A0A078GHI5_BRANA; BnaA08g15410D protein
TrEMBL	A0A3P6BI90	1e-128	A0A3P6BI90_BRACM; Uncharacterized protein
STRING	Bo1g005450.1	1e-123	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2208	26	77

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G36740.1	8e-99	homeobox protein 40

Publications ? help Back to Top
González-Grandío E, et al. Abscisic acid signaling is controlled by a BRANCHED1/HD-ZIP I cascade in Arabidopsis axillary buds. Proc. Natl. Acad. Sci. U.S.A., 2017. 114(2): p. E245-E254 [PMID:28028241]