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

XP_009130907.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

C2H2

Protein Properties

Length: 224aa MW: 25171.6 Da PI: 8.7266

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009130907.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.7	9.5e-06	53	75	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 y+C+ Cg+ F++ L H+++H XP_009130907.1 53 YTCSFCGREFKSAQALGGHMNVH 75 9********************99 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	6.91E-7	50	79	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.7E-4	51	77	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	12.154	53	80	IPR007087	Zinc finger, C2H2
Pfam	PF13912	1.4E-6	53	76	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.0011	53	75	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	55	75	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: 224 aa Download sequence Send to blast
MRSYSCQMER DKCLMSMKFR PVVTRQSSNA ALLWPFGEEY GGGGGCMWPP RSYTCSFCGR 60 EFKSAQALGG HMNVHRRDRA RLKQQSLSSS STDQTTPLDY DHQQHEVLDV GPKFPVQEDS 120 RKPNGSKREI SDVGNSNVLE ISMKRFEHYN DEVKTDLSIG LVSSEFDPRR KQLINGVLAS 180 KKAKTDVSRL PMMVGLVIGV SKINGHHEEL DLELRLGADP PKVN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1njq_A	7e-13	48	75	2	29	superman protein
2l1o_A	7e-13	48	75	2	29	Transcriptional regulator SUPERMAN
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Not expressed in the inflorescence meristem or in the flowers at stages 1 and 2. First expressed in the precursor cells of petal primordia in stage 3 flowers and in the developing petal primordia up to stage 6. Not expressed at later stages. {ECO:0000269\|PubMed:14681191}.
Uniprot	TISSUE SPECIFICITY: Strongly expressed in inflorescences and flowers, and weakly in siliques, seedlings and roots. In flowers, it is expressed in petal primordia and their precursor cells. Also expressed in the lateral root caps and the basal cells of lateral roots. {ECO:0000269\|PubMed:14681191}.

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	XP_009130907.1

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009130907.1	1e-168	PREDICTED: probable transcriptional regulator RABBIT EARS
Swissprot	Q9LHS9	1e-123	RBE_ARATH; Probable transcriptional regulator RABBIT EARS
TrEMBL	A0A3P5ZPH0	1e-161	A0A3P5ZPH0_BRACM; Uncharacterized protein
TrEMBL	M4CNT6	1e-161	M4CNT6_BRARP; Uncharacterized protein
STRING	Bra005874.1-P	1e-162	(Brassica rapa)

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-108	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]