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.5KG604600.1.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

bHLH

Protein Properties

Length: 225aa MW: 23746.8 Da PI: 6.5025

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.5KG604600.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	30.6	6.1e-10	70	110	9	54
HHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS HLH 9 ErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54 r RR+ri ++f Lr+l+P K++ +++Le+A++Y+k L Pavir.5KG604600.1.p 70 ARERRHRISDRFRVLRSLVPGG-----SKMDTVSMLEQAIHYVKFL 110 699***************95.....5**************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	15.313	61	110	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.44E-14	66	126	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	6.45E-14	67	115	No hit	No description
SMART	SM00353	6.3E-13	67	116	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.1E-12	67	121	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.7E-7	70	110	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 225 aa Download sequence Send to blast
MEPYHYQAVY DPRGFPMIHP QPYRHHPAAA GGALSDRVRG GGGGGGGGGG GGGRRRPGAK 60 LSTDPQSVAA RERRHRISDR FRVLRSLVPG GSKMDTVSML EQAIHYVKFL KAQVSLHQAA 120 LMQHEEGCPA ELAAAYSAVA GAGEVTLASS CRAGACEEVV MQLQQDPLQE AMSYDVVGAP 180 RLHGLDPVPQ MSGGHELPPL PSCVFVEEPA ACYSVCDLDE GESY*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	38	53	RGGGGGGGGGGGGGGR

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed in growing new meristem. Down-regulated in elongating new meristem. {ECO:0000269\|PubMed:13130077}.
Uniprot	TISSUE SPECIFICITY: Expressed in the boundary between the shoot apical meristem (SAM) and the region of new meristem formation. {ECO:0000269\|PubMed:13130077}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that seems to regulate organogenesis in postembryonic development. Involved in the regulation of shoot branching by controlling axillary meristem initiation. Functions in association with LAX2 to regulate the process of AM formation. Possesses transactivation activity in yeast (PubMed:21963665). {ECO:0000269\|PubMed:13130077, ECO:0000269\|PubMed:21963665}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.5KG604600.1.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	AY886028	2e-99	AY886028.1 Oryza rufipogon isolate LAX29 LAX gene, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025819500.1	1e-120	transcription factor LAX PANICLE 1-like
Swissprot	Q7XAQ6	9e-59	LAX1_ORYSJ; Transcription factor LAX PANICLE 1
TrEMBL	A0A2S3HQB2	1e-119	A0A2S3HQB2_9POAL; Uncharacterized protein
TrEMBL	A0A2T7DEW4	1e-119	A0A2T7DEW4_9POAL; Uncharacterized protein
STRING	Pavir.Ea03297.1.p	1e-135	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP8553	32	43

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G01310.1	9e-27	APRATAXIN-like

Link Out ? help Back to Top
Phytozome	Pavir.5KG604600.1.p

Publications ? help Back to Top
Kaur P, et al. Genes controlling plant growth habit in Leymus (Triticeae): maize barren stalk1 (ba1), rice lax panicle, and wheat tiller inhibition (tin3) genes as possible candidates. Funct. Integr. Genomics, 2008. 8(4): p. 375-86 [PMID:18543009] Oikawa T,Kyozuka J Two-Step Regulation of LAX PANICLE1 Protein Accumulation in Axillary Meristem Formation in Rice. Plant Cell, 2009. 21(4): p. 1095-108 [PMID:19346465] Woods DP,Hope CL,Malcomber ST Phylogenomic analyses of the BARREN STALK1/LAX PANICLE1 (BA1/LAX1) genes and evidence for their roles during axillary meristem development. Mol. Biol. Evol., 2011. 28(7): p. 2147-59 [PMID:21297156] Tabuchi H, et al. LAX PANICLE2 of rice encodes a novel nuclear protein and regulates the formation of axillary meristems. Plant Cell, 2011. 23(9): p. 3276-87 [PMID:21963665] Gao ZY, et al. Dissecting yield-associated loci in super hybrid rice by resequencing recombinant inbred lines and improving parental genome sequences. Proc. Natl. Acad. Sci. U.S.A., 2013. 110(35): p. 14492-7 [PMID:23940322] Deshpande GM,Ramakrishna K,Chongloi GL,Vijayraghavan U Functions for rice RFL in vegetative axillary meristem specification and outgrowth. J. Exp. Bot., 2015. 66(9): p. 2773-84 [PMID:25788736] Sekhar S, et al. Spikelet-specific variation in ethylene production and constitutive expression of ethylene receptors and signal transducers during grain filling of compact- and lax-panicle rice (Oryza sativa) cultivars. J. Plant Physiol., 2015. 179: p. 21-34 [PMID:25817414] Mohanta TK,Mohanta N,Parida P,Bae H Mitogen Activated Protein Kinase (MPK) Interacts With Auxin Influx Carrier (OsAux/LAX1) Involved in Auxin Signaling in Plant. Biol Proced Online, 2015. 17: p. 13 [PMID:26526688] Sekhar S, et al. Identification and Characterization of Differentially Expressed Genes in Inferior and Superior Spikelets of Rice Cultivars with Contrasting Panicle-Compactness and Grain-Filling Properties. PLoS ONE, 2015. 10(12): p. e0145749 [PMID:26710230] Das K, et al. Comparative proteomics of the superior and inferior spikelets at the early grain filling stage in rice cultivars contrast for panicle compactness and ethylene evolution. J. Plant Physiol., 2016. 202: p. 65-74 [PMID:27450495]