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.2KG048300.5.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: 382aa MW: 40170.8 Da PI: 4.9484

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.2KG048300.5.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	57.4	2.6e-18	201	247	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 hn+ ErrRRdriN+++ L+el+P++ K +Ka+iL +A+eY+ksLq Pavir.2KG048300.5.p 201 VHNMSERRRRDRINEKMRALQELVPHC-----NKTDKASILDEAIEYLKSLQ 247 6***********************8.....6****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	6.75E-19	192	251	No hit	No description
SuperFamily	SSF47459	9.16E-22	195	262	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	18.743	197	246	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.7E-15	201	247	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.5E-22	201	256	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.4E-18	203	252	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: 382 aa Download sequence Send to blast
MDGGERPAAT QKRPFPPDGE LVELLWQDGA VVAHSQAAQR AVAGAGNTGA SGVTGEAAAW 60 LPGGGALGGD VYSQLWQSIA QADGRVGARP PARSGNSAAG SSRTAGEVGS SFCGSNLVAA 120 ARHLDDDIDD VAALPPPPPP GDEPGACGGA STSSGWNSNA LLKRSRDELD FRSEDADLDT 180 VDETPASRRP ASKRRTRAAE VHNMSERRRR DRINEKMRAL QELVPHCNKT DKASILDEAI 240 EYLKSLQMQV QIMWMSTGMA PMMLPGAHQL MPPMSMGLNS AYMPPAAQFL SQIQTVPPFL 300 SNPLPNQIPQ ISPASTSAPN VTNQVQSNRM AQPRNPFLHP NDALTSTPQM AQENAIQELL 360 ACTAAPALDA EQLSSSDGTG T*

Sequence ? help Back to Top

Protein Sequence Length: 382 aa Download sequence Send to blast

MDGGERPAAT QKRPFPPDGE LVELLWQDGA VVAHSQAAQR AVAGAGNTGA SGVTGEAAAW  60
LPGGGALGGD VYSQLWQSIA QADGRVGARP PARSGNSAAG SSRTAGEVGS SFCGSNLVAA  120
ARHLDDDIDD VAALPPPPPP GDEPGACGGA STSSGWNSNA LLKRSRDELD FRSEDADLDT  180
VDETPASRRP ASKRRTRAAE VHNMSERRRR DRINEKMRAL QELVPHCNKT DKASILDEAI  240
EYLKSLQMQV QIMWMSTGMA PMMLPGAHQL MPPMSMGLNS AYMPPAAQFL SQIQTVPPFL  300
SNPLPNQIPQ ISPASTSAPN VTNQVQSNRM AQPRNPFLHP NDALTSTPQM AQENAIQELL  360
ACTAAPALDA EQLSSSDGTG T*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	192	209	KRRTRAAEVHNMSERRRR
2	205	210	ERRRRD

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Highly expressed in the node portions of the stem. Expressed in the leaves and the basal part of shoots. {ECO:0000269\|PubMed:22984180}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that may act as negative regulator of phyB-dependent light signal transduction (PubMed:17485859). Transcription activator that acts as positive regulator of internode elongation. May function via regulation of cell wall-related genes. May play a role in a drought-associated growth-restriction mechanism in response to drought stress (PubMed:22984180). {ECO:0000269\|PubMed:17485859, ECO:0000269\|PubMed:22984180}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.2KG048300.5.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by light in dark-grown etiolated seedlings (PubMed:17485859). Circadian oscillation under 12 h light/12 h dark cycle conditions, with peaks in the middle of the light period (PubMed:17485859, PubMed:22984180). Down-regulated by cold and drought stresses (PubMed:22984180). {ECO:0000269\|PubMed:17485859, ECO:0000269\|PubMed:22984180}.

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_025804058.1	0.0	transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13-like isoform X2
Swissprot	Q10CH5	1e-96	PIL13_ORYSJ; Transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13
TrEMBL	A0A2T7EKQ1	0.0	A0A2T7EKQ1_9POAL; Uncharacterized protein
STRING	Pavir.Bb00256.1.p	0.0	(Panicum virgatum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G09530.2	1e-33	phytochrome interacting factor 3

Link Out ? help Back to Top
Phytozome	Pavir.2KG048300.5.p

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Nakamura Y,Kato T,Yamashino T,Murakami M,Mizuno T Characterization of a set of phytochrome-interacting factor-like bHLH proteins in Oryza sativa. Biosci. Biotechnol. Biochem., 2007. 71(5): p. 1183-91 [PMID:17485859] Zhao XL,Shi ZY,Peng LT,Shen GZ,Zhang JL An atypical HLH protein OsLF in rice regulates flowering time and interacts with OsPIL13 and OsPIL15. N Biotechnol, 2011. 28(6): p. 788-97 [PMID:21549224] Todaka D, et al. Rice phytochrome-interacting factor-like protein OsPIL1 functions as a key regulator of internode elongation and induces a morphological response to drought stress. Proc. Natl. Acad. Sci. U.S.A., 2012. 109(39): p. 15947-52 [PMID:22984180]