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.7NG380500.2.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

AP2

Protein Properties

Length: 417aa MW: 44818.4 Da PI: 8.9719

Description

AP2 family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.7NG380500.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	AP2	22.8	2.3e-07	90	123	17	55
AP2 17 AeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 +++rd + k+++lg f+ta Aa+a+++a+ k++g Pavir.7NG380500.2.p 90 VRCRD------CgKQVYLGGFDTAHAAARAYDRAAIKFRG 123 68889......55************************997 PP
2	AP2	43.4	8.5e-14	166	216	1	55
AP2 1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 s+y+GV+ +k grW+ + + +k+++lg f+t+eeAa+a+++a+ k +g Pavir.7NG380500.2.p 166 SKYRGVTLHK-CGRWETRMGQF--L-GKKYVYLGLFDTEEEAARAYDRAAIKCNG 216 89******.7884443..1.36********************99776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51032	11.482	15	131	IPR001471	AP2/ERF domain
SMART	SM00380	2.7E-13	86	137	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	1.6E-11	95	131	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	4.32E-9	95	132	IPR016177	DNA-binding domain
Pfam	PF00847	4.5E-10	166	216	IPR001471	AP2/ERF domain
SuperFamily	SSF54171	2.48E-17	166	226	IPR016177	DNA-binding domain
CDD	cd00018	6.61E-25	166	226	No hit	No description
PROSITE profile	PS51032	16.041	167	224	IPR001471	AP2/ERF domain
Gene3D	G3DSA:3.30.730.10	1.3E-16	167	224	IPR001471	AP2/ERF domain
SMART	SM00380	5.6E-32	167	230	IPR001471	AP2/ERF domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 417 aa Download sequence Send to blast
MVSSVAARRP FPLPRARGET MQRQQLARTE GWFAIGFLLF WAFLASAPFA FHSNILSKLF 60 LPAVTTMPCH ALSHRLSSLS SPPSPCFLFV RCRDCGKQVY LGGFDTAHAA ARAYDRAAIK 120 FRGVEADINF SLEDYDDDMK QMGNLSKEEF VHVLRRQSTG FPRGSSKYRG VTLHKCGRWE 180 TRMGQFLGKK YVYLGLFDTE EEAARAYDRA AIKCNGKDAV TNFDPSIYAE EIEPAAAKGG 240 DEHNLDLSLG SSAGSKRGSL DGGDDETSDQ RVPMAFDLDW QTAAARSTKA KFDASSKPPQ 300 MPPPAFQAGH HLAFGPRHHQ QFLSNGGDPG TAGGLSLAIG GAGGGGGHWP PHPLLHGWGN 360 GGGTSWPLPL HPPPPSNAAA AATAAAASSR FPPYVTTQGP PGWVRQNGFH SLARPT*

Sequence ? help Back to Top

Protein Sequence Length: 417 aa Download sequence Send to blast

MVSSVAARRP FPLPRARGET MQRQQLARTE GWFAIGFLLF WAFLASAPFA FHSNILSKLF  60
LPAVTTMPCH ALSHRLSSLS SPPSPCFLFV RCRDCGKQVY LGGFDTAHAA ARAYDRAAIK  120
FRGVEADINF SLEDYDDDMK QMGNLSKEEF VHVLRRQSTG FPRGSSKYRG VTLHKCGRWE  180
TRMGQFLGKK YVYLGLFDTE EEAARAYDRA AIKCNGKDAV TNFDPSIYAE EIEPAAAKGG  240
DEHNLDLSLG SSAGSKRGSL DGGDDETSDQ RVPMAFDLDW QTAAARSTKA KFDASSKPPQ  300
MPPPAFQAGH HLAFGPRHHQ QFLSNGGDPG TAGGLSLAIG GAGGGGGHWP PHPLLHGWGN  360
GGGTSWPLPL HPPPPSNAAA AATAAAASSR FPPYVTTQGP PGWVRQNGFH SLARPT*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pvr.23014	2e-73	root

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: In developing panicles, highly expressed in the spikelet abscission zone (AZ) and the inner floral organs of 2 mm long spikelets. Later present at weak levels in the apiculus as well as in the palea and lemma to progressively fades out in 8 mm long spikelets. {ECO:0000269\|PubMed:22408071}.
Uniprot	TISSUE SPECIFICITY: Expressed in seedlings, leaves, stems, nodes, sheaths, panicles and young spikelets. Accumulates in the spikelet abscission zone (AZ) via a positive regulation by the transcription factor SH4. {ECO:0000269\|PubMed:22408071}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor (PubMed:22408071). Involved in spikelet transition and development (PubMed:22408071). Prevents lemma and palea elongation as well as grain growth (PubMed:22408071). Required for seed shattering through specifying abscission zone (AZ) development (PubMed:22408071). {ECO:0000269\|PubMed:22408071}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.7NG380500.2.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	BT056188	0.0	BT056188.1 Zea mays full-length cDNA clone ZM_BFb0070P06 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025824499.1	1e-177	AP2-like ethylene-responsive transcription factor TOE3 isoform X2
Swissprot	B8AVJ9	1e-149	APL25_ORYSI; APETALA2-like protein 5
TrEMBL	A0A2T8IE45	1e-176	A0A2T8IE45_9POAL; Uncharacterized protein
STRING	Pavir.Gb00344.1.p	0.0	(Panicum virgatum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G36920.2	5e-78	AP2 family protein

Link Out ? help Back to Top
Phytozome	Pavir.7NG380500.2.p

Publications ? help Back to Top
Zhou Y, et al. Genetic control of seed shattering in rice by the APETALA2 transcription factor shattering abortion1. Plant Cell, 2012. 24(3): p. 1034-48 [PMID:22408071]