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.2NG538800.1.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: 224aa MW: 24596.7 Da PI: 4.6536

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.2NG538800.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	41.5	2.5e-13	55	101	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 ++ e+ErrRR r+Ns + Lr ++P+ +K+sK ++L A+++Ik+Lq Pavir.2NG538800.1.p 55 KNLEAERRRRGRLNSNILALRAVVPNI-----TKMSKESTLSDAIDHIKKLQ 101 56799*******************7.....7****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	8.17E-13	49	104	No hit	No description
SuperFamily	SSF47459	6.02E-17	51	116	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.218	51	100	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.9E-14	53	112	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.1E-10	54	101	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	7.6E-14	57	106	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: 224 aa Download sequence Send to blast
MPRRQRARSS EELKAEDFVD SVLNFGGGAE GEEEEEEGEA GGGDGQPAPT EYKSKNLEAE 60 RRRRGRLNSN ILALRAVVPN ITKMSKESTL SDAIDHIKKL QNQVLELQQQ LADSPGEAWE 120 KQGSASCSES FAATENMPFQ GQVELVPLGP YKYHLKIFCK KAGIFTKVLE ALCSYNAQVT 180 SLSTITFYGY AESVFCIEVK GEQDVVMVEL RSLLSSIVEV PNN*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: During anther development, expressed at the late premeiosis and meiosis stages in both the anther wall and the microspores. After meiosis, expressed in the tapetum, connective tissue, and vascular bundles. {ECO:0000269\|PubMed:16141453}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that plays a crucial role in tapetum development. Required for male fertility and pollen differentiation within the developing anther. Plays a major role in maintaining tapetum development, starting in early meiosis. Required for pollen mother cell meiosis. May regulate the anther-specific cysteine protease CP1 and lipid-transfer proteins C4 and C6 (PubMed:16141453). Required for anther development. Functions in parallel with GAMYB to regulate early anther development. Functions upstream of the transcription factor TDR and may positively regulate its transcription (PubMed:20590996). {ECO:0000269\|PubMed:16141453, ECO:0000269\|PubMed:20590996}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.2NG538800.1.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	BT068494	0.0	BT068494.1 Zea mays full-length cDNA clone ZM_BFb0227D06 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025804464.1	1e-141	transcription factor UDT1-like
Swissprot	B9FXT3	4e-91	UDT1_ORYSJ; Transcription factor UDT1
TrEMBL	A0A3L6QTG1	1e-141	A0A3L6QTG1_PANMI; Uncharacterized protein
TrEMBL	A0A3L6T7X1	1e-141	A0A3L6T7X1_PANMI; Uncharacterized protein
STRING	Pavir.Ba00709.1.p	1e-163	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP11982	30	36

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G16910.1	4e-17	bHLH family protein

Link Out ? help Back to Top
Phytozome	Pavir.2NG538800.1.p

Publications ? help Back to Top
Liu Z,Bao W,Liang W,Yin J,Zhang D Identification of gamyb-4 and analysis of the regulatory role of GAMYB in rice anther development. J Integr Plant Biol, 2010. 52(7): p. 670-8 [PMID:20590996]