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

Pahal.A00090.5

Organism

Panicum hallii

Taxonomic ID

206008

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: 560aa MW: 58744.2 Da PI: 4.4064

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pahal.A00090.5	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	40.2	6.2e-13	306	349	7	55
HHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +ErrRR+++N+++ +Lr+l+P+ +K++ a+iL A++YI Lq Pahal.A00090.5 306 VAERRRRKKLNDRLYKLRSLVPNI-----TKMDRASILGDAIDYIVGLQ 349 58*******************7.....7*************9887 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47459	9.42E-18	297	360	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.974	299	348	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	4.9E-16	305	354	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.2E-16	306	360	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.8E-10	306	349	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.95E-13	306	353	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009555	Biological Process	pollen development
GO:0048657	Biological Process	anther wall tapetum cell differentiation
GO:0005634	Cellular Component	nucleus
GO:0000978	Molecular Function	RNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 560 aa Download sequence Send to blast
MGGGDHQCMA AAAAAAAGDG GASVESALRP LVGADAWDYC IYWRLSPDQR FLEMTGFCCS 60 SEFEAQISAL GELPSSIPLD SSSAGMHAEA MLSNQPIWQT SCVSELPASY SSEHTSGGPR 120 TRLLVPVAGG LVELFAARYM AEEEQMAELV MAQCGVPATA GDGEGNDGGV VHAWPEAPGF 180 AWDGAAAGAG ADPQRMYGAV PSLNLFDAAG NVSADPFLAA APGVVDDAAA AGWQYATAAG 240 SEPSVVAVQQ EQPHQLHGAA RAGGADSGSE GSDMQGDPED DGDGDAQGRG GGGKGGGKRQ 300 QCKNLVAERR RRKKLNDRLY KLRSLVPNIT KMDRASILGD AIDYIVGLQN QVKALQDELE 360 DPADGAPDVL LDHPPPASLV GLENDDSPRT SLHQPAAPLA GSKRPRAAEE EKAGSKRPRA 420 AAEEEKGHDM EPQVEVRQVE ANEFFLQVLC EHKPGRFVRL MDAVSALGLE VTNVNVTSYK 480 TLVLNVLRVA KRDNEVAVQA DRVRDLLLEV TRESYGVWSS APPVGSGGID AKLDGIDEQA 540 QAAAEDHYGG YNHLLQYLA*

Sequence ? help Back to Top

Protein Sequence Length: 560 aa Download sequence Send to blast

MGGGDHQCMA AAAAAAAGDG GASVESALRP LVGADAWDYC IYWRLSPDQR FLEMTGFCCS  60
SEFEAQISAL GELPSSIPLD SSSAGMHAEA MLSNQPIWQT SCVSELPASY SSEHTSGGPR  120
TRLLVPVAGG LVELFAARYM AEEEQMAELV MAQCGVPATA GDGEGNDGGV VHAWPEAPGF  180
AWDGAAAGAG ADPQRMYGAV PSLNLFDAAG NVSADPFLAA APGVVDDAAA AGWQYATAAG  240
SEPSVVAVQQ EQPHQLHGAA RAGGADSGSE GSDMQGDPED DGDGDAQGRG GGGKGGGKRQ  300
QCKNLVAERR RRKKLNDRLY KLRSLVPNIT KMDRASILGD AIDYIVGLQN QVKALQDELE  360
DPADGAPDVL LDHPPPASLV GLENDDSPRT SLHQPAAPLA GSKRPRAAEE EKAGSKRPRA  420
AAEEEKGHDM EPQVEVRQVE ANEFFLQVLC EHKPGRFVRL MDAVSALGLE VTNVNVTSYK  480
TLVLNVLRVA KRDNEVAVQA DRVRDLLLEV TRESYGVWSS APPVGSGGID AKLDGIDEQA  540
QAAAEDHYGG YNHLLQYLA*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	288	297	RGGGGKGGGK
2	307	314	ERRRRKKL

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor involved in the regulation of tapetum programmed cell death (PCD) and degradation during male reproductive development. Promotes tapetal PCD. Positively regulates the expression of two tapetum-specific genes, the cysteine protease CP1 and the lipid-transfer protein C6 (PubMed:17138695). Acts upstream from and interacts with EAT1/DTD in the regulation of tapetal PCD (PubMed:23385589). Regulates the expression of genes related to aliphatic metabolism during pollen development. May play regulatory role in the lipidic metabolism involved in the formation of pollen wall (PubMed:19825565). {ECO:0000269\|PubMed:17138695, ECO:0000269\|PubMed:19825565, ECO:0000269\|PubMed:23385589}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT034326	1e-139	BT034326.1 Zea mays full-length cDNA clone ZM_BFc0007A07 mRNA, complete cds.
GenBank	BT042791	1e-139	BT042791.1 Zea mays full-length cDNA clone ZM_BFc0041J08 mRNA, complete cds.
GenBank	BT063010	1e-139	BT063010.2 Zea mays full-length cDNA clone ZM_BFc0017C04 mRNA, complete cds.
GenBank	BT063118	1e-139	BT063118.1 Zea mays full-length cDNA clone ZM_BFc0027J15 mRNA, complete cds.
GenBank	BT065717	1e-139	BT065717.1 Zea mays full-length cDNA clone ZM_BFc0042K04 mRNA, complete cds.
GenBank	BT067785	1e-139	BT067785.1 Zea mays full-length cDNA clone ZM_BFc0159F07 mRNA, complete cds.
GenBank	BT068836	1e-139	BT068836.1 Zea mays full-length cDNA clone ZM_BFc0079O03 mRNA, complete cds.
GenBank	BT088090	1e-139	BT088090.1 Zea mays full-length cDNA clone ZM_BFc0009P17 mRNA, complete cds.
GenBank	BT088299	1e-139	BT088299.1 Zea mays full-length cDNA clone ZM_BFc0123M15 mRNA, complete cds.
GenBank	EU966823	1e-139	EU966823.1 Zea mays clone 297605 helix-loop-helix DNA-binding domain containing protein mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025825508.1	0.0	transcription factor TDR-like
Refseq	XP_025825517.1	0.0	transcription factor TDR-like
Refseq	XP_025825524.1	0.0	transcription factor TDR-like
Refseq	XP_025825535.1	0.0	transcription factor TDR-like
Refseq	XP_025825544.1	0.0	transcription factor TDR-like
Refseq	XP_025825551.1	0.0	transcription factor TDR-like
Refseq	XP_025825560.1	0.0	transcription factor TDR-like
Swissprot	Q6YUS3	0.0	TDR_ORYSJ; Transcription factor TDR
TrEMBL	A0A2S3GKL9	0.0	A0A2S3GKL9_9POAL; Uncharacterized protein
STRING	Pavir.Ab00204.1.p	0.0	(Panicum virgatum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G16910.1	7e-55	bHLH family protein

Link Out ? help Back to Top
Phytozome	Pahal.A00090.5

Publications ? help Back to Top
Endo M, et al. High temperatures cause male sterility in rice plants with transcriptional alterations during pollen development. Plant Cell Physiol., 2009. 50(11): p. 1911-22 [PMID:19808807] Xu J,Wu M,He C [Identification and functional analysis of Tdrxoo, the member of TonB-dependent-receptor family proteins in Xanthomonas oryzae pv. oryzae]. Wei Sheng Wu Xue Bao, 2010. 50(2): p. 155-61 [PMID:20387456] 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] Zhang D, et al. OsC6, encoding a lipid transfer protein, is required for postmeiotic anther development in rice. Plant Physiol., 2010. 154(1): p. 149-62 [PMID:20610705] Senapati PK,Behera S Experimental investigation on an entrained flow type biomass gasification system using coconut coir dust as powdery biomass feedstock. Bioresour. Technol., 2012. 117: p. 99-106 [PMID:22613886] Zhang SR,Dong DM,Zheng WG,Zhao XD,Wang JH [Laser-induced fluorescence spectroscopy characterization of farmland soil moisture content]. Guang Pu Xue Yu Guang Pu Fen Xi, 2012. 32(10): p. 2623-7 [PMID:23285852] Li L, et al. An anther development F-box (ADF) protein regulated by tapetum degeneration retardation (TDR) controls rice anther development. Planta, 2015. 241(1): p. 157-66 [PMID:25236969] Yi J, et al. Defective Tapetum Cell Death 1 (DTC1) Regulates ROS Levels by Binding to Metallothionein during Tapetum Degeneration. Plant Physiol., 2016. 170(3): p. 1611-23 [PMID:26697896]