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.2KG272100.1.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: 311aa MW: 35099.2 Da PI: 9.9546

Description

C2H2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.2KG272100.1.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	13.9	0.00016	147	166	1	20
EEETTTTEEESSHHHHHHHH CS zf-C2H2 1 ykCpdCgksFsrksnLkrHi 20 ++Cp C k+Fsr nL+ H+ Pavir.2KG272100.1.p 147 FTCPVCCKTFSRYNNLQMHM 166 89*****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57667	1.23E-5	139	169	No hit	No description
Gene3D	G3DSA:3.30.160.60	1.2E-6	147	166	IPR013087	Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profile	PS50157	10.325	147	174	IPR007087	Zinc finger, C2H2
PROSITE pattern	PS00028	0	149	169	IPR007087	Zinc finger, C2H2
PROSITE profile	PS50157	9.349	251	287	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: 311 aa Download sequence Send to blast
MANPYTFLRP HIEHLWFQRS LVSPPPPAFT KEALPLLSLL PRSHDYNHFH KNDGLRKKEK 60 RVTEDVDIKL RIGPPSPNRD LPLNLAKISA TVASAGDNKV EEYEDLGSEG GAAGDGRCLE 120 YFAIGKLTKG KYWIPTPAQI LFGPTLFTCP VCCKTFSRYN NLQMHMWGHG SQYRRGPDSL 180 RGAQPAAMLR LPCFCCAPGC RSHVDHPRAR PLKDFRTLQT HYRRRHCARP FLCRRCGKAL 240 AVRGDWRTHE KNCGRRWRCA CGSDFKHKRS LRDHVRAFGR DHVEEHPPAS SIGCNRGVAG 300 EDRPGAGDQM *

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.2KG272100.1.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-167	AK357467.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, partial cds, clone: NIASHv1054C05.
GenBank	AK359410	1e-167	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	Q9SVY1	2e-96	ZWIP2_ARATH; Zinc finger protein WIP2
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	9e-99	C2H2 family protein

Link Out ? help Back to Top
Phytozome	Pavir.2KG272100.1.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]