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

Carubv10002935m

Common Name

CARUB_v10002935mg

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

C2H2

Protein Properties

Length: 227aa MW: 25254.7 Da PI: 9.0038

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10002935m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.3	1.3e-05	51	73	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y+C+ Cg+ F++ L H+++H Carubv10002935m 51 YSCSFCGREFKSAQALGGHMNVH 73 99*******************99 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.1E-6	48	77	No hit	No description
Gene3D	G3DSA:3.30.160.60	2.3E-4	49	75	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Pfam	PF13912	3.4E-6	51	74	IPR007087	Zinc finger, C2H2
PROSITE profile	PS50157	12.154	51	78	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0017	51	73	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	53	73	IPR007087	Zinc finger, C2H2

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009409	Biological Process	response to cold
GO:0048441	Biological Process	petal development
GO:0005634	Cellular Component	nucleus
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 227 aa Download sequence Send to blast
MERGECLMSM KLRPVVTKPS SDALSFWPFG EERAVEEYGG GGGCMWPPRS YSCSFCGREF 60 KSAQALGGHM NVHRRDRARL KQQSLSPSST DQATPPEYDR HQQQPQQVLD VGSKVLVQEE 120 LRKPNGTKRE ISIVCNNNVL ENPTKRFEHD KGEVKTDLSV GLLSSEFGPR KKQLFNGSSS 180 SWKKAKTDVS RFPMMLGLVI GVSKINGHHD ELDLELRLGA DPPKVN*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1njq_A	3e-12	46	73	2	29	superman protein
2l1o_A	3e-12	46	73	2	29	Transcriptional regulator SUPERMAN
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Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcriptional regulator essential for petal development. Required for the early development of the organ primordia of the second whorl. Acts downstream of AP1 and PTL. {ECO:0000269\|PubMed:14681191}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10002935m

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	AB107371	0.0	AB107371.1 Arabidopsis thaliana RBE mRNA for one finger-type zinc finger protein for RABBIT EARS, complete cds.
GenBank	AP002030	0.0	AP002030.1 Arabidopsis thaliana genomic DNA, chromosome 5, TAC clone:K16F4.
GenBank	AY088861	0.0	AY088861.1 Arabidopsis thaliana clone 97505 mRNA, complete sequence.
GenBank	CP002688	0.0	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006289430.1	1e-169	probable transcriptional regulator RABBIT EARS
Swissprot	Q9LHS9	1e-144	RBE_ARATH; Probable transcriptional regulator RABBIT EARS
TrEMBL	R0HEW6	1e-167	R0HEW6_9BRAS; Uncharacterized protein
STRING	XP_006289430.1	1e-168	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5128	25	44

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G06070.1	1e-146	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Carubv10002935m
Entrez Gene	17883873

Publications ? help Back to Top
Li J, et al. RABBIT EARS regulates the transcription of TCP4 during petal development in Arabidopsis. J. Exp. Bot., 2016. 67(22): p. 6473-6480 [PMID:27838638]