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

Carubv10027040m

Common Name

CARUB_v10027040mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

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

Family

HD-ZIP

Protein Properties

Length: 237aa MW: 27112.3 Da PI: 5.9855

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10027040m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	62.2	7.7e-20	77	130	4	57
-SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHHC CS Homeobox 4 RttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakekk 57 ++++t+eq++ Le F +++++ ++e++A++lgL+ rqV vWFqNrRa++k+ Carubv10027040m 77 KRKLTDEQVNMLEYSFGNEHKLESGRKEKIAAELGLDPRQVAVWFQNRRARWKN 130 4589************************************************95 PP
2	HD-ZIP_I/II	119.8	1.5e-38	76	167	2	93
HD-ZIP_I/II 2 kkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 +kr+l++eqv++LE sF +e+kLe+ rK+++a eLgl+prqvavWFqnrRAR+k+k+lE++y++Lk+++d+++ +++Le++v +L+e+l+e Carubv10027040m 76 RKRKLTDEQVNMLEYSFGNEHKLESGRKEKIAAELGLDPRQVAVWFQNRRARWKNKKLEEEYAKLKNHHDTVVLGQCQLESQVLKLTEQLHE 167 8****************************************************************************************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00389	6.2E-18	74	135	IPR001356	Homeobox domain
SuperFamily	SSF46689	8.36E-18	76	133	IPR009057	Homeodomain-like
CDD	cd00086	8.35E-16	76	132	No hit	No description
PROSITE profile	PS50071	16.147	76	131	IPR001356	Homeobox domain
Pfam	PF00046	4.5E-17	77	130	IPR001356	Homeobox domain
Gene3D	G3DSA:1.10.10.60	2.8E-20	78	138	IPR009057	Homeodomain-like
PRINTS	PR00031	8.0E-6	102	111	IPR000047	Helix-turn-helix motif
PROSITE pattern	PS00027	0	106	129	IPR017970	Homeobox, conserved site
PRINTS	PR00031	8.0E-6	111	127	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:0009733	Biological Process	response to auxin
GO:0005634	Cellular Component	nucleus
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 237 aa Download sequence Send to blast
MDHGRLMEDQ MVLGGSQVYH YTTPTQSSQC IMVNQIDGSS SSGEGSKPVK RRRKRRSKGT 60 SATNEGDVGE IGGMLRKRKL TDEQVNMLEY SFGNEHKLES GRKEKIAAEL GLDPRQVAVW 120 FQNRRARWKN KKLEEEYAKL KNHHDTVVLG QCQLESQVLK LTEQLHEAQN EIRKLSERLE 180 EMPTNSSSSS LSVEANDAQF DFELAPEPET NYNNIPFYML DNNYLQSMEY WDGLYV*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	49	55	KRRRKRR
2	74	79	LRKRKL

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that may play a regulatory role in auxin/cytokinin signaling during root development. {ECO:0000269\|PubMed:15567172}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00591	DAP	Transfer from AT5G66700	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10027040m

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By abscisic acid (ABA), by salt stress, by indole-3-acetic acid (IAA) and during darkness conditions. Down-regulated by cytokinin. {ECO:0000269\|PubMed:15567172, ECO:0000269\|PubMed:16055682}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006281022.1	1e-178	homeobox-leucine zipper protein ATHB-53
Swissprot	Q9LVR0	1e-128	ATB53_ARATH; Homeobox-leucine zipper protein ATHB-53
TrEMBL	R0GNJ1	1e-176	R0GNJ1_9BRAS; Uncharacterized protein
STRING	XP_006281022.1	1e-177	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM12602	17	31

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G66700.1	1e-128	homeobox 53

Link Out ? help Back to Top
Phytozome	Carubv10027040m
Entrez Gene	17876951

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]