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_013603326.1

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

C3H

Protein Properties

Length: 415aa MW: 46153.5 Da PI: 8.2501

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013603326.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	31.9	2.2e-10	146	169	3	26
S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 3 telCrffartGtCkyGdrCkFaHg 26 e C+ f+r G C++Gd C FaHg XP_013603326.1 146 AEVCPEFRRDGDCSRGDDCEFAHG 169 589********************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF90229	3.53E-6	142	173	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	6.6E-6	143	170	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	13.929	143	171	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	1.2E-6	144	171	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	4.0E-8	146	169	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.5	179	202	IPR000571	Zinc finger, CCCH-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010187	Biological Process	negative regulation of seed germination
GO:0005634	Cellular Component	nucleus
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 415 aa Download sequence Send to blast
MQYLLLSSCT HLSDQNTKHT QTRRRKTMDV AMRPTVDIPP RKLLLAESSP RYSPRKHNWN 60 SKVSNKIAIP EREEEKEDNN NSKETTKEYC YDSDTDDPYA SEHFRMFEFK IRRCTRSRSH 120 DWTDCPFAHP GEKARRRDPR RFQYSAEVCP EFRRDGDCSR GDDCEFAHGV FECWLHPIRY 180 RTEACKDGKH CKRKVCFFAH SPRQLRVLPP ENVSGGSASA SPAKNPCCMF CSSSPTSTLL 240 GNLSHLSRSP SLSPPLSPAS HKAAAFSRLR NRAASTVSEA VSAAAAAGSV NYNDVLTELV 300 NSLDSINLAE ALHVSSSSPV TTPVSGAAAA AFASSCGLSN QRLHLQQQQS SPLQFALSPS 360 TPSYLTNSPR PNIFSGEFTP PQRQINEFTA VRDKTSFEDG SCGDPDLGWV NDLLT

Sequence ? help Back to Top

Protein Sequence Length: 415 aa Download sequence Send to blast

MQYLLLSSCT HLSDQNTKHT QTRRRKTMDV AMRPTVDIPP RKLLLAESSP RYSPRKHNWN  60
SKVSNKIAIP EREEEKEDNN NSKETTKEYC YDSDTDDPYA SEHFRMFEFK IRRCTRSRSH  120
DWTDCPFAHP GEKARRRDPR RFQYSAEVCP EFRRDGDCSR GDDCEFAHGV FECWLHPIRY  180
RTEACKDGKH CKRKVCFFAH SPRQLRVLPP ENVSGGSASA SPAKNPCCMF CSSSPTSTLL  240
GNLSHLSRSP SLSPPLSPAS HKAAAFSRLR NRAASTVSEA VSAAAAAGSV NYNDVLTELV  300
NSLDSINLAE ALHVSSSSPV TTPVSGAAAA AFASSCGLSN QRLHLQQQQS SPLQFALSPS  360
TPSYLTNSPR PNIFSGEFTP PQRQINEFTA VRDKTSFEDG SCGDPDLGWV NDLLT

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	21	26	TRRRKT

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Specifically expressed in seeds. {ECO:0000269\|PubMed:18487351}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription repressor that functions as negative regulator of phytochrome-mediated promotion of seed germination. Inhibits seed germination by regulating the expression of gibberellic acid (GA) and abscisic acid (ABA) metabolic genes. Does not regulate the expression of the DELLA genes RGA and RGA1. Activated by PIL5, a phytochrome-interacting basic helix-loop-helix transcription factor. {ECO:0000269\|PubMed:18487351}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_013603326.1

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_013603326.1	0.0	PREDICTED: zinc finger CCCH domain-containing protein 2
Refseq	XP_013694008.2	0.0	zinc finger CCCH domain-containing protein 2
Swissprot	Q9ZWA1	0.0	C3H2_ARATH; Zinc finger CCCH domain-containing protein 2
TrEMBL	A0A0D3DIQ4	0.0	A0A0D3DIQ4_BRAOL; Uncharacterized protein
STRING	Bo8g002610.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2987	27	66

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G03790.1	1e-138	C3H family protein

Publications ? help Back to Top
Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Chang G, et al. AFP2 as the novel regulator breaks high-temperature-induced seeds secondary dormancy through ABI5 and SOM in Arabidopsis thaliana. Biochem. Biophys. Res. Commun., 2018. 501(1): p. 232-238 [PMID:29723526]