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

Rsa1.0_00940.1_g00001.1

Organism

Raphanus sativus

Taxonomic ID

3726

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 216aa MW: 24248.4 Da PI: 9.2614

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00940.1_g00001.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.8	9.1e-06	42	64	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y+C+ Cg+ F++ L H+++H Rsa1.0_00940.1_g00001.1 42 YTCSFCGREFKSAQALGGHMNVH 64 9********************99 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	6.54E-7	39	68	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.6E-4	40	66	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Pfam	PF13912	1.3E-6	42	65	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0011	42	64	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	12.154	42	69	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	44	64	IPR007087	Zinc finger, C2H2

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003676	Molecular Function	nucleic acid binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 216 aa Download sequence Send to blast
MSMKLRPVAT RQSLWPFGRD RAFAEIEEYG GGGGCMWPPR SYTCSFCGRE FKSAQALGGH 60 MNVHRRDRAR LKQQSLSSSS TEQATPLDCD HQQQVRKQHE VLDVGPKFPF QGDSRKPSGT 120 KREISDVGNS NVLESSMKRF EHYNDDVQTD LSIGLLSSEF DPRQKQLING FSKKAKTDVT 180 RLPVMLGLVI GVSKINGHHE ELDLELRLGA HPPKIN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1njq_A	6e-13	37	64	2	29	superman protein
2l1o_A	6e-13	37	64	2	29	Transcriptional regulator SUPERMAN
Search in ModeBase

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	Rsa1.0_00940.1_g00001.1

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	1e-72	AB107371.1 Arabidopsis thaliana RBE mRNA for one finger-type zinc finger protein for RABBIT EARS, complete cds.
GenBank	AP002030	1e-72	AP002030.1 Arabidopsis thaliana genomic DNA, chromosome 5, TAC clone:K16F4.
GenBank	AY088861	1e-72	AY088861.1 Arabidopsis thaliana clone 97505 mRNA, complete sequence.
GenBank	CP002688	1e-72	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018475593.1	1e-161	PREDICTED: probable transcriptional regulator RABBIT EARS
Swissprot	Q9LHS9	1e-118	RBE_ARATH; Probable transcriptional regulator RABBIT EARS
TrEMBL	A0A397XP14	1e-116	A0A397XP14_BRACM; Uncharacterized protein
STRING	AT5G06070.1	1e-116	(Arabidopsis thaliana)

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-120	C2H2 family protein

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]