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.8KG374900.1.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

M-type_MADS

Protein Properties

Length: 394aa MW: 43268.7 Da PI: 6.7559

Description

M-type_MADS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.8KG374900.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SRF-TF	67.8	1e-21	10	53	2	45
---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSE CS SRF-TF 2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgk 45 + en+s rqvt+skRr gilKKA+ELS+LCd++ +++fs++gk Pavir.8KG374900.1.p 10 KLENSSGRQVTYSKRRSGILKKAKELSILCDIDLILLMFSPSGK 53 679***************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50066	24.656	1	53	IPR002100	Transcription factor, MADS-box
SMART	SM00432	5.2E-30	1	60	IPR002100	Transcription factor, MADS-box
SuperFamily	SSF55455	1.15E-25	2	95	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.2E-17	3	23	IPR002100	Transcription factor, MADS-box
Pfam	PF00319	2.8E-19	11	55	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.2E-17	23	38	IPR002100	Transcription factor, MADS-box
PRINTS	PR00404	1.2E-17	38	59	IPR002100	Transcription factor, MADS-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010152	Biological Process	pollen maturation
GO:0080092	Biological Process	regulation of pollen tube growth
GO:0003677	Molecular Function	DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 394 aa Download sequence Send to blast
MGRVKLKIKK LENSSGRQVT YSKRRSGILK KAKELSILCD IDLILLMFSP SGKPTVCIGE 60 KSNIEEVIAK YAQLTPQERA KRKLESLEAL KKTFKKLDHD VNIQDFLGSG GQTVEELSSH 120 LGSLQCQMAD VQKRLSYWGD PEKIENIDHI RGMEQSLKES LNRIRIHKEN FAKQHLIGLQ 180 CAAAQFQTDM QLPLGLTGDP GPSSWFQNGG ADGQQPMMLP DDSGLLHQRD IGCSTSTSLQ 240 SYPGYFSMSK QSTDTGGGSE HGQPAAHQQP PDFGEAACLT HLGAQFPYTP FDTSLFNERM 300 FRPDAMELHD GSAGIDFGGG HFNMPRPGDE ASFQNWASAA CGAAMFDHHQ QQQHHQQQQP 360 SSAQIPAATT LAPASFDHAA VKQDPSQHQQ VMI*

Sequence ? help Back to Top

Protein Sequence Length: 394 aa Download sequence Send to blast

MGRVKLKIKK LENSSGRQVT YSKRRSGILK KAKELSILCD IDLILLMFSP SGKPTVCIGE  60
KSNIEEVIAK YAQLTPQERA KRKLESLEAL KKTFKKLDHD VNIQDFLGSG GQTVEELSSH  120
LGSLQCQMAD VQKRLSYWGD PEKIENIDHI RGMEQSLKES LNRIRIHKEN FAKQHLIGLQ  180
CAAAQFQTDM QLPLGLTGDP GPSSWFQNGG ADGQQPMMLP DDSGLLHQRD IGCSTSTSLQ  240
SYPGYFSMSK QSTDTGGGSE HGQPAAHQQP PDFGEAACLT HLGAQFPYTP FDTSLFNERM  300
FRPDAMELHD GSAGIDFGGG HFNMPRPGDE ASFQNWASAA CGAAMFDHHQ QQQHHQQQQP  360
SSAQIPAATT LAPASFDHAA VKQDPSQHQQ VMI*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
6byy_A	1e-13	1	92	1	90	MEF2 CHIMERA
6byy_B	1e-13	1	92	1	90	MEF2 CHIMERA
6byy_C	1e-13	1	92	1	90	MEF2 CHIMERA
6byy_D	1e-13	1	92	1	90	MEF2 CHIMERA
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in pollen. {ECO:0000269\|PubMed:12949148}.

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription factor that forms a heterodimer with the MADS-box protein AGL104 and is involved in the regulation of pollen maturation at the late stages of pollen development and pollen tube growth. {ECO:0000269\|PubMed:19211705}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.8KG374900.1.p

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025828481.1	0.0	agamous-like MADS-box protein AGL65
Swissprot	Q7X9I0	7e-86	AGL65_ARATH; Agamous-like MADS-box protein AGL65
TrEMBL	A0A2T7CQU5	0.0	A0A2T7CQU5_9POAL; Uncharacterized protein
STRING	Pavir.Hb00170.1.p	0.0	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP4626	36	59

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G18750.1	9e-78	AGAMOUS-like 65

Link Out ? help Back to Top
Phytozome	Pavir.8KG374900.1.p

Publications ? help Back to Top
Zhang S, et al. FERTILIZATION-INDEPENDENT SEED-Polycomb Repressive Complex 2 Plays a Dual Role in Regulating Type I MADS-Box Genes in Early Endosperm Development. Plant Physiol., 2018. 177(1): p. 285-299 [PMID:29523711]