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

RrC42628_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: 85aa MW: 10283.7 Da PI: 9.7402

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC42628_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	66.1	4.8e-21	4	57	4	57
-SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS Homeobox 4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 ++++t+eq++ Le F ++++ e++ ++A++lgL+ rqV vWFqNrRa++k+ RrC42628_p1 4 KRKLTDEQVNMLEMRFGDEHKLESERKDKIAAELGLDPRQVAVWFQNRRARWKN 57 4589************************************************96 PP
2	HD-ZIP_I/II	119.2	2.2e-38	3	84	2	83
HD-ZIP_I/II 2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLeke 83 +kr+l++eqv++LE+ F e+kLe+erK ++a eLgl+prqvavWFqnrRAR+k+k+lE++y++Lk+++d+++ +++rLe+e RrC42628_p1 3 RKRKLTDEQVNMLEMRFGDEHKLESERKDKIAAELGLDPRQVAVWFQNRRARWKNKRLEEEYNKLKNSHDNVVGDKCRLESE 84 8******************************************************************************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50071	16.876	1	58	IPR001356	Homeobox domain
SMART	SM00389	1.4E-19	1	62	IPR001356	Homeobox domain
CDD	cd00086	1.02E-13	3	59	No hit	No description
Pfam	PF00046	2.6E-18	4	57	IPR001356	Homeobox domain
SuperFamily	SSF46689	1.17E-18	4	68	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	4.3E-21	5	65	IPR009057	Homeodomain-like
PRINTS	PR00031	4.2E-6	29	38	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	33	56	IPR017970	Homeobox, conserved site
PRINTS	PR00031	4.2E-6	38	54	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: 85 aa Download sequence Send to blast
MLRKRKLTDE QVNMLEMRFG DEHKLESERK DKIAAELGLD PRQVAVWFQN RRARWKNKRL 60 EEEYNKLKNS HDNVVGDKCR LESEV

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	1	6	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-103	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_018481857.1	1e-51	PREDICTED: homeobox-leucine zipper protein ATHB-40-like isoform X2
Swissprot	O23208	4e-52	ATB40_ARATH; Homeobox-leucine zipper protein ATHB-40
TrEMBL	A0A178V092	1e-49	A0A178V092_ARATH; HB40
TrEMBL	A0A1P8B6F4	1e-49	A0A1P8B6F4_ARATH; Homeobox protein 40
STRING	AT4G36740.1	2e-50	(Arabidopsis thaliana)

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	2e-54	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]