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.2NG253000.1.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: 310aa MW: 35054.1 Da PI: 9.6613

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.2NG253000.1.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	20.6	1.2e-06	146	165	1	20
EEETTTTEEESSHHHHHHHH CS zf-C2H2 1 ykCpdCgksFsrksnLkrHi 20 + Cp C k+Fsr nL+ H+ Pavir.2NG253000.1.p 146 FACPVCRKTFSRYNNLQMHM 165 78*****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	8.16E-6	141	168	No hit	No description
PROSITE profile	PS50157	10.616	146	173	IPR007087	Zinc finger, C2H2
Gene3D	G3DSA:3.30.160.60	6.2E-7	146	165	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE pattern	PS00028	0	148	168	IPR007087	Zinc finger, C2H2
PROSITE profile	PS50157	9.349	250	286	IPR007087	Zinc finger, C2H2

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: 310 aa Download sequence Send to blast
MANPYTFPRP HIEHLWFQRS LVSPPPPAFT KEALPLLSLL PPSHDYNHYH NNDRLRKKEK 60 WVMEDVDIKL RIGPPSPNRD LPLNLAKSAT VAGAGHNKVE EFEELGSEGG TAGDGRCLEH 120 FAIGKLTKGN YWIPTPAQIL FGPTLFACPV CRKTFSRYNN LQMHMWGHGS QYRRGPDSLR 180 GAQPAAMLRL PCFCCAPGCR NHVDHPRAWP LKDFRTLQTH YRRRHCARPF LCRRCGKALA 240 VRGDWRTHEK NCGRRWRCTC GSDFKHKRSL KDHVRAFGRD HVEEHPPAAA SIACNHGVAG 300 EDPGPGDQM*

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcriptional regulator. {ECO:0000305\|PubMed:20541552}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.2NG253000.1.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	AK357467	1e-159	AK357467.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, partial cds, clone: NIASHv1054C05.
GenBank	AK359410	1e-159	AK359410.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv1096E11.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025801470.1	0.0	zinc finger protein WIP2-like
Swissprot	Q8W030	4e-96	ZWIP4_ARATH; Zinc finger protein WIP4
TrEMBL	A0A2S3GY05	0.0	A0A2S3GY05_9POAL; Uncharacterized protein
TrEMBL	A0A2T7EQK2	0.0	A0A2T7EQK2_9POAL; Uncharacterized protein
STRING	Pavir.Ba02648.1.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	7e-98	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Pavir.2NG253000.1.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]