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

Carubv10027280m

Common Name

CARUB_v10027280mg

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: 160aa MW: 18083.2 Da PI: 7.9546

Description

HD-ZIP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10027280m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	59.3	6.1e-19	13	66	3	56
--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHHHHHHHHHHHH CS Homeobox 3 kRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkvWFqNrRakek 56 k+ ++t+eq+++Le++F n+++ + + +L+++lgL++rqV vWFqN+Ra+ k Carubv10027280m 13 KKKRLTQEQVRQLEKCFTVNKKLEPDLKIQLSNQLGLPQRQVAVWFQNKRARSK 66 55679***********************************************99 PP
2	HD-ZIP_I/II	100.9	1.1e-32	12	104	1	93
HD-ZIP_I/II 1 ekkrrlskeqvklLEesFeeeekLeperKvelareLglqprqvavWFqnrRARtktkqlEkdyeaLkraydalkeenerLekeveeLreelke 93 +kk+rl++eqv++LE++F+ ++kLep+ K +l+++Lgl +rqvavWFqn+RAR kt+ lE ++ +L+++++a +++++Le++v+ L++elk+ Carubv10027280m 12 NKKKRLTQEQVRQLEKCFTVNKKLEPDLKIQLSNQLGLPQRQVAVWFQNKRARSKTQALELQHCTLQSKLEAALSDKAKLERQVQFLQDELKR 104 59****************************************************************************************986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:1.10.10.60	2.9E-18	3	62	IPR009057	Homeodomain-like
SuperFamily	SSF46689	5.99E-18	8	68	IPR009057	Homeodomain-like
PROSITE profile	PS50071	16.584	8	68	IPR001356	Homeobox domain
SMART	SM00389	6.1E-17	10	72	IPR001356	Homeobox domain
CDD	cd00086	5.34E-15	13	68	No hit	No description
Pfam	PF00046	3.1E-16	13	66	IPR001356	Homeobox domain
PROSITE pattern	PS00027	0	43	66	IPR017970	Homeobox, conserved site

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0009637	Biological Process	response to blue light
GO:0009646	Biological Process	response to absence of light
GO:0005634	Cellular Component	nucleus
GO:0043565	Molecular Function	sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 160 aa Download sequence Send to blast
MENSESESQS GNKKKRLTQE QVRQLEKCFT VNKKLEPDLK IQLSNQLGLP QRQVAVWFQN 60 KRARSKTQAL ELQHCTLQSK LEAALSDKAK LERQVQFLQD ELKRSRNQLA LLRSHGSPAD 120 NSYLGSCEEE GQDDQVVVFD ELYACFVSNG HGSSSTSWV*

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10027280m

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	AB007644	1e-149	AB007644.1 Arabidopsis thaliana genomic DNA, chromosome 5, TAC clone: K19P17.
GenBank	AK229211	1e-149	AK229211.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL16-49-M21.
GenBank	BT015927	1e-149	BT015927.1 Arabidopsis thaliana At5g53980 mRNA, complete cds.
GenBank	BT021920	1e-149	BT021920.1 Arabidopsis thaliana At5g53980 gene, complete cds.
GenBank	CP002688	1e-149	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006281237.1	1e-113	homeobox-leucine zipper protein ATHB-52
Swissprot	Q9FN29	1e-91	ATB52_ARATH; Homeobox-leucine zipper protein ATHB-52
TrEMBL	R0GP52	1e-112	R0GP52_9BRAS; Uncharacterized protein
STRING	XP_006281237.1	1e-113	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM12107	26	32

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G53980.1	4e-94	homeobox protein 52

Link Out ? help Back to Top
Phytozome	Carubv10027280m
Entrez Gene	17877156