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

Pavir.5KG607300.2.p

Organism

Panicum virgatum

Taxonomic ID

38727

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

C3H

Protein Properties

Length: 333aa MW: 38266.4 Da PI: 6.2194

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.5KG607300.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	17.8	5.9e-06	92	115	2	26
-S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 2 ktelCrffartGtCkyGdrCkFaHg 26 k lC ff G+C+ G +CkF+H+ Pavir.5KG607300.2.p 92 KSILCEFFKV-GQCQKGFKCKFSHD 115 67799999.***********7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50103	14.831	90	117	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	6.8E-6	90	115	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	1.5E-4	90	116	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	2.4E-4	92	116	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	10.953	160	198	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	4.3	160	197	IPR000571	Zinc finger, CCCH-type
Pfam	PF16543	5.9E-16	217	297	IPR032378	ZC3H15/TMA46 family, C-terminal

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

Sequence ? help Back to Top
Protein Sequence Length: 333 aa Download sequence Send to blast
MPPKKAAPSK AELAKKQKVV EDKTFGLKNK NKSKNVQKYV QSLHQAVQPK PDPTKTAAKK 60 KKEEEKAREK ELNDLFKVAV SQPKVPVGVD PKSILCEFFK VGQCQKGFKC KFSHDLNVQR 120 KGEKIDIYTD KRDAETMEDW DQETLEKVVE SKKTEYQQNK PTDIVCKYFL DAVEKKQYGW 180 FWVCPNGGKD CHYRHALPPG YVLKSQMKAL LEEESEKLSI EDEIEDQRKK TKSTTPMTTE 240 LFMEWKRKKA EEREAGQAAL KAERAKNDRM SGRELFMADA SVFVDDAEAY EVYEREEESE 300 ANEESVSADK LVIQEFDCEE DLGTWSWPSP CP*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	227	248	RKKTKSTTPMTTELFMEWKRKK

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pvr.11168	0.0	callus\| leaf\| root\| stem

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.5KG607300.2.p

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	EU962898	0.0	EU962898.1 Zea mays clone 246367 nucleic acid binding protein mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004970485.1	0.0	zinc finger CCCH domain-containing protein 11
Swissprot	Q0JHZ2	0.0	C3H11_ORYSJ; Zinc finger CCCH domain-containing protein 11
TrEMBL	A0A368RD31	0.0	A0A368RD31_SETIT; Uncharacterized protein
STRING	Pavir.J39593.1.p	0.0	(Panicum virgatum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G20280.1	1e-142	C3H family protein

Link Out ? help Back to Top
Phytozome	Pavir.5KG607300.2.p

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]