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.6NG295600.1.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: 404aa MW: 44032.6 Da PI: 6.7183

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.6NG295600.1.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	16.3	2.8e-05	235	254	1	20
EEETTTTEEESSHHHHHHHH CS zf-C2H2 1 ykCpdCgksFsrksnLkrHi 20 ++Cp C k+F+r n++ H+ Pavir.6NG295600.1.p 235 FSCPVCYKTFNRYNNMQMHM 254 89*****************9 PP
2	zf-C2H2	12.6	0.00042	321	341	3	23
ETTTTEEESSHHHHHHHHHHT CS zf-C2H2 3 CpdCgksFsrksnLkrHirtH 23 C +Cgk F k + ++H +++ Pavir.6NG295600.1.p 321 CRKCGKAFAVKGDWRTHEKNC 341 *****************9987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	8.42E-5	231	257	No hit	No description
SMART	SM00355	0.45	235	257	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	9.743	235	262	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	7.2E-6	235	254	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	237	257	IPR007087	Zinc finger, C2H2
SuperFamily	SSF57667	3.13E-6	303	339	No hit	No description
Gene3D	G3DSA:3.30.160.60	2.9E-5	306	339	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
SMART	SM00355	82	319	339	IPR015880	Zinc finger, C2H2-like
PROSITE profile	PS50157	8.621	319	339	IPR007087	Zinc finger, C2H2
SMART	SM00355	220	345	368	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: 404 aa Download sequence Send to blast
MEDPYTSFFK NPYYYYTTSF PAAAPAPHIP PPLPPYTSRY PPSSAATPQY PACFFQPQPT 60 LPPLHDSPPS PPLREALPLL SQSPTLGASR PRHVAADYDA DDFLREVVGS SATPSARAPL 120 FADLNCMPSC CDDGDPMDVE AGSSTDDAAV ALRIGLPAAP ANGCGGTEPD LLSGLTGRAC 180 GGMEPEEDEE ECKVDAGDGD EVVPLGFAST PIGRLNKGQY WIPTPAQILI GPTQFSCPVC 240 YKTFNRYNNM QMHMWGHGSQ YRKGPESLRG VQPTAMLRLP CYCCAAGCRN NIDHPRARPL 300 KDFRTLQTHY KRKHGLKPFL CRKCGKAFAV KGDWRTHEKN CGRLWYCLCG SEFKHKRSLK 360 DHARAFGHGH GHGAFGCNAD EMVDDDDGAV SEIEQDCCRS SAR*

Sequence ? help Back to Top

Protein Sequence Length: 404 aa Download sequence Send to blast

MEDPYTSFFK NPYYYYTTSF PAAAPAPHIP PPLPPYTSRY PPSSAATPQY PACFFQPQPT  60
LPPLHDSPPS PPLREALPLL SQSPTLGASR PRHVAADYDA DDFLREVVGS SATPSARAPL  120
FADLNCMPSC CDDGDPMDVE AGSSTDDAAV ALRIGLPAAP ANGCGGTEPD LLSGLTGRAC  180
GGMEPEEDEE ECKVDAGDGD EVVPLGFAST PIGRLNKGQY WIPTPAQILI GPTQFSCPVC  240
YKTFNRYNNM QMHMWGHGSQ YRKGPESLRG VQPTAMLRLP CYCCAAGCRN NIDHPRARPL  300
KDFRTLQTHY KRKHGLKPFL CRKCGKAFAV KGDWRTHEKN CGRLWYCLCG SEFKHKRSLK  360
DHARAFGHGH GHGAFGCNAD EMVDDDDGAV SEIEQDCCRS SAR*

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.6NG295600.1.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	FP096907	0.0	FP096907.1 Phyllostachys edulis cDNA clone: bphylf041f10, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025821697.1	0.0	zinc finger protein WIP2-like
Swissprot	Q9SVY1	1e-114	ZWIP2_ARATH; Zinc finger protein WIP2
TrEMBL	A0A3L6PSC8	0.0	A0A3L6PSC8_PANMI; Zinc finger protein WIP2-like
STRING	Pavir.Fb01879.1.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-106	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Pavir.6NG295600.1.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]