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.4KG282300.1.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

C2H2

Protein Properties

Length: 414aa MW: 44249 Da PI: 7.4731

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.4KG282300.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-C2H2	15.9	3.7e-05	247	266	1	20
EEETTTTEEESSHHHHHHHH CS zf-C2H2 1 ykCpdCgksFsrksnLkrHi 20 ++Cp C k+F+r n++ H+ Pavir.4KG282300.1.p 247 FSCPVCFKTFNRYNNMQMHM 266 89*****************9 PP
2	zf-C2H2	11	0.0013	333	353	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C Cgk F k + ++H +++ Pavir.4KG282300.1.p 333 CRRCGKAFAVKGDWRTHEKNC 353 *****************9987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00355	0.38	247	269	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	9.64	247	274	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	6.1E-6	247	266	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	249	269	IPR007087	Zinc finger, C2H2
SMART	SM00355	180	294	326	IPR015880	Zinc finger, C2H2-like
SuperFamily	SSF57667	3.13E-6	313	351	No hit	No description
Gene3D	G3DSA:3.30.160.60	3.9E-5	318	351	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	8.538	331	351	IPR007087	Zinc finger, C2H2
SMART	SM00355	140	331	351	IPR015880	Zinc finger, C2H2-like
SMART	SM00355	220	357	380	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: 414 aa Download sequence Send to blast
MENPYTSFFK SHPHHHRHYY HPAAPPPAPA ATPAAYSSSL PFFAAHLHQP PTHTPPAPPS 60 PPLREALPLL SLAPAAASSR GITREQQGQR GRAAADSDED GDEEEEEEEG GGPAASSNVR 120 HGQQRVGGGG LFADLNAKAA GDRMGVESGA GSGSAAGDVT VALRIGLPTT SAGSADLIGA 180 RRRHQDGGAE EEDDDEGRND RENGGGEEEG EAVAAPLGFT STPIGRLNKG QYWIPTPSQI 240 LIGPTQFSCP VCFKTFNRYN NMQMHMWGHG SQYRKGPESL RGIQPTAMLR LPCYCCAVGC 300 RNNIDHPRAK PLKDFRTLQT HYKRKHGLKP FLCRRCGKAF AVKGDWRTHE KNCGRLWYCL 360 CGSEFKHKRS LKDHARAFGH GHGFVAGAGC GGGDDDDGAI SDVDHDGAAA ASR*

Sequence ? help Back to Top

Protein Sequence Length: 414 aa Download sequence Send to blast

MENPYTSFFK SHPHHHRHYY HPAAPPPAPA ATPAAYSSSL PFFAAHLHQP PTHTPPAPPS  60
PPLREALPLL SLAPAAASSR GITREQQGQR GRAAADSDED GDEEEEEEEG GGPAASSNVR  120
HGQQRVGGGG LFADLNAKAA GDRMGVESGA GSGSAAGDVT VALRIGLPTT SAGSADLIGA  180
RRRHQDGGAE EEDDDEGRND RENGGGEEEG EAVAAPLGFT STPIGRLNKG QYWIPTPSQI  240
LIGPTQFSCP VCFKTFNRYN NMQMHMWGHG SQYRKGPESL RGIQPTAMLR LPCYCCAVGC  300
RNNIDHPRAK PLKDFRTLQT HYKRKHGLKP FLCRRCGKAF AVKGDWRTHE KNCGRLWYCL  360
CGSEFKHKRS LKDHARAFGH GHGFVAGAGC GGGDDDDGAI SDVDHDGAAA ASR*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in developing carpels (PubMed:17600712). Expressed in the shoot apical meristem and the replum (PubMed:25039392). {ECO:0000269\|PubMed:17600712}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional regulator required for normal differentiation of the ovary transmitting tract cells and pollen tube growth. In Arabidopsis, the transmitting tract facilitates the transport of pollen tubes to the ovules for fertilization (PubMed:17600712). May play a role in the regulation of AGL8/FUL, which is required for normal pattern of cell division, expansion and differentiation during morphogenesis of the silique (PubMed:23515580). Plays a role in replum development by the activation of the homeobox protein KNAT1 (PubMed:25039392). {ECO:0000269\|PubMed:17600712, ECO:0000269\|PubMed:23515580, ECO:0000269\|PubMed:25039392}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.4KG282300.1.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	EU969661	0.0	EU969661.1 Zea mays clone 333696 zinc finger protein mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025799833.1	0.0	zinc finger protein WIP2-like
Swissprot	Q9SVY1	1e-118	ZWIP2_ARATH; Zinc finger protein WIP2
TrEMBL	A0A3L6QMZ7	0.0	A0A3L6QMZ7_PANMI; Zinc finger protein WIP2-like
STRING	Pavir.J16431.1.p	0.0	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP586	38	170

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G57670.1	1e-105	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Pavir.4KG282300.1.p

Publications ? help Back to Top
Crawford BC, et al. Plant development. Genetic control of distal stem cell fate within root and embryonic meristems. Science, 2015. 347(6222): p. 655-9 [PMID:25612610] Boex-Fontvieille E, et al. An Ethylene-Protected Achilles' Heel of Etiolated Seedlings for Arthropod Deterrence. Front Plant Sci, 2016. 7: p. 1246 [PMID:27625656]