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_013599512.1

Organism

Brassica oleracea

Taxonomic ID

3712

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: 435aa MW: 46274.6 Da PI: 9.916

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013599512.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	17.4	1.2e-05	62	84	1	23
EEETTTTEEESSHHHHHHHHHHT CS zf-C2H2 1 ykCpdCgksFsrksnLkrHirtH 23 ++C++C+k F r nL+ H r H XP_013599512.1 62 FVCEICNKGFQRDQNLQLHRRGH 84 89*******************88 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	4.69E-7	61	84	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.4E-5	61	84	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
Pfam	PF12171	6.7E-5	62	84	IPR022755	Zinc finger, double-stranded RNA binding
PROSITE profile	PS50157	10.949	62	84	IPR007087	Zinc finger, C2H2
SMART	SM00355	0.017	62	84	IPR015880	Zinc finger, C2H2-like
PROSITE pattern	PS00028	0	64	84	IPR007087	Zinc finger, C2H2
SMART	SM00355	250	103	133	IPR015880	Zinc finger, C2H2-like
Gene3D	G3DSA:3.30.160.60	5.7E-4	126	159	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamily	SSF57667	4.69E-7	133	158	No hit	No description
SMART	SM00355	180	138	158	IPR015880	Zinc finger, C2H2-like

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: 435 aa Download sequence Send to blast
MPVDLDNSST VSGEASVSST GNQQNPLPKS AAKKKRNLPG MPDPDSEVIA LSPKTLLATN 60 RFVCEICNKG FQRDQNLQLH RRGHNLPWKL RQKSSQEVKK KVYVCPETSC VHHDPSRALG 120 DLTGIKKHFC RKHGEKKWKC DKCSKRYAVV SDWKAHSKIC GTKEYKCDCG TLFSRRDSFM 180 THRAFCDALA GESVRNHTHS KKQSPEILTR KKPVPDPKPS LAAPVETQPA ITIKRPESPK 240 TPREILQEAQ EPTGLNGVFF ESSSASPSIY ASSCSQSLFA PSSSIEPISL GLSASHGPSF 300 LCSTRFPSQP AMSATALLQK AAQMGAASSG GSLLRGLGIV SSTSPSLDSI VPHGLALGLP 360 CGGESSSGLK ELMMGNSSVF GPKQTTLDFL GLGRAVGKGG GPGSTLVGPR GGSIDALATF 420 GSGEFSGNDI GRRTS

Sequence ? help Back to Top

Protein Sequence Length: 435 aa Download sequence Send to blast

MPVDLDNSST VSGEASVSST GNQQNPLPKS AAKKKRNLPG MPDPDSEVIA LSPKTLLATN  60
RFVCEICNKG FQRDQNLQLH RRGHNLPWKL RQKSSQEVKK KVYVCPETSC VHHDPSRALG  120
DLTGIKKHFC RKHGEKKWKC DKCSKRYAVV SDWKAHSKIC GTKEYKCDCG TLFSRRDSFM  180
THRAFCDALA GESVRNHTHS KKQSPEILTR KKPVPDPKPS LAAPVETQPA ITIKRPESPK  240
TPREILQEAQ EPTGLNGVFF ESSSASPSIY ASSCSQSLFA PSSSIEPISL GLSASHGPSF  300
LCSTRFPSQP AMSATALLQK AAQMGAASSG GSLLRGLGIV SSTSPSLDSI VPHGLALGLP  360
CGGESSSGLK ELMMGNSSVF GPKQTTLDFL GLGRAVGKGG GPGSTLVGPR GGSIDALATF  420
GSGEFSGNDI GRRTS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3h_C	2e-31	134	195	3	64	Zinc finger protein JACKDAW
5b3h_F	2e-31	134	195	3	64	Zinc finger protein JACKDAW
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Observed in vegetative tissues. Mainly expressed in hypocotyls, petioles, shoot apices, root tips, and trichomes, and, at low levels, in leaves, stems and flowers. {ECO:0000269\|PubMed:25035403}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that acts as a positive regulator of gibberellin (GA) action, homeostasis and signaling. GA converts the GAF1 complex from transcriptional activator to repressor via the degradation of DELLA proteins. {ECO:0000269\|PubMed:25035403}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00403	DAP	Transfer from AT3G50700	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013599512.1

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK353210	0.0	AK353210.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-27-D18.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013599512.1	0.0	PREDICTED: protein indeterminate-domain 2
Swissprot	Q9SCQ6	0.0	IDD2_ARATH; Zinc finger protein GAI-ASSOCIATED FACTOR 1
TrEMBL	A0A0D3DS02	0.0	A0A0D3DS02_BRAOL; Uncharacterized protein
STRING	Bo8g080100.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM155	28	306

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G50700.1	0.0	indeterminate(ID)-domain 2

Publications ? help Back to Top
Fukazawa J, et al. DELLAs function as coactivators of GAI-ASSOCIATED FACTOR1 in regulation of gibberellin homeostasis and signaling in Arabidopsis. Plant Cell, 2014. 26(7): p. 2920-38 [PMID:25035403] Moreno-Risueno MA, et al. Transcriptional control of tissue formation throughout root development. Science, 2015. 350(6259): p. 426-30 [PMID:26494755] Khare D, et al. Root avoidance of toxic metals requires the GeBP-LIKE 4 transcription factor in Arabidopsis thaliana. New Phytol., 2017. 213(3): p. 1257-1273 [PMID:27768815]