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

Sevir.1G110100.2.p

Organism

Setaria viridis

Taxonomic ID

4556

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria

Family

bHLH

Protein Properties

Length: 537aa MW: 56527 Da PI: 4.2941

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sevir.1G110100.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	38.2	2.6e-12	291	334	7	55
HHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +Er+RR+++N+++ +Lr+l+P+ +K++ a+iL A++YI Lq Sevir.1G110100.2.p 291 LAERKRRKKLNERLYKLRSLVPNI-----TKMDRASILGDAIDYIVGLQ 334 58*******************7.....7*************9887 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47459	1.07E-17	282	345	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	3.90E-14	283	338	No hit	No description
PROSITE profile	PS50888	15.936	284	333	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	5.4E-16	290	339	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	6.2E-10	291	334	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	5.7E-16	291	345	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd04873	7.05E-4	411	475	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: 537 aa Download sequence Send to blast
MGGGDHRCMA ATAAASAGDG GGSVEAALRP LVGANAWDYC IYWRLSPDQR FLEMAGLCCS 60 SEFEAQVSAL GELPSSIPLD SSSAGMHAEA MMSNQPIWQT SCVPELPTSY STELGSAGPR 120 TRLLVPIAGG LVELFAARYM AEEEQMAELV MAQCGVPARA TEGEGDEGGA AVHTWPEAPG 180 FAWDGADPQR MFGAVPPSLS LFDAAGDPFL VAPPPGVVDD AAAAGWQYVA AAGSEPSVAA 240 QQEQHGAARA GGADSGSEGS DLQGDPEDDG DDDVQGRGGG GGKRQQCKNL LAERKRRKKL 300 NERLYKLRSL VPNITKMDRA SILGDAIDYI VGLQNQVKAL QDELEDPADG APDVLLDHPP 360 PASLVGLEND DSPRASKRAR VAAAAPAEEE KGHDMEPQVE VRQVEANEFF LQVLCEHKPG 420 RFVRLMDAVN ALGLDVTNVN VTSYKTLVLN VLHVARRDNE VAVQADRVRD SLLEVTRESY 480 GGVWSSAAPA VGSSGSIDVK LDCVDVKLDG GVDVQAPAAA AEDHYGGYNH LLQYLT*

Sequence ? help Back to Top

Protein Sequence Length: 537 aa Download sequence Send to blast

MGGGDHRCMA ATAAASAGDG GGSVEAALRP LVGANAWDYC IYWRLSPDQR FLEMAGLCCS  60
SEFEAQVSAL GELPSSIPLD SSSAGMHAEA MMSNQPIWQT SCVPELPTSY STELGSAGPR  120
TRLLVPIAGG LVELFAARYM AEEEQMAELV MAQCGVPARA TEGEGDEGGA AVHTWPEAPG  180
FAWDGADPQR MFGAVPPSLS LFDAAGDPFL VAPPPGVVDD AAAAGWQYVA AAGSEPSVAA  240
QQEQHGAARA GGADSGSEGS DLQGDPEDDG DDDVQGRGGG GGKRQQCKNL LAERKRRKKL  300
NERLYKLRSL VPNITKMDRA SILGDAIDYI VGLQNQVKAL QDELEDPADG APDVLLDHPP  360
PASLVGLEND DSPRASKRAR VAAAAPAEEE KGHDMEPQVE VRQVEANEFF LQVLCEHKPG  420
RFVRLMDAVN ALGLDVTNVN VTSYKTLVLN VLHVARRDNE VAVQADRVRD SLLEVTRESY  480
GGVWSSAAPA VGSSGSIDVK LDCVDVKLDG GVDVQAPAAA AEDHYGGYNH LLQYLT*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	292	299	ERKRRKKL

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sevir.1G110100.2.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	BT034326	1e-122	BT034326.1 Zea mays full-length cDNA clone ZM_BFc0007A07 mRNA, complete cds.
GenBank	BT042791	1e-122	BT042791.1 Zea mays full-length cDNA clone ZM_BFc0041J08 mRNA, complete cds.
GenBank	BT063010	1e-122	BT063010.2 Zea mays full-length cDNA clone ZM_BFc0017C04 mRNA, complete cds.
GenBank	BT063118	1e-122	BT063118.1 Zea mays full-length cDNA clone ZM_BFc0027J15 mRNA, complete cds.
GenBank	BT065717	1e-122	BT065717.1 Zea mays full-length cDNA clone ZM_BFc0042K04 mRNA, complete cds.
GenBank	BT067785	1e-122	BT067785.1 Zea mays full-length cDNA clone ZM_BFc0159F07 mRNA, complete cds.
GenBank	BT068836	1e-122	BT068836.1 Zea mays full-length cDNA clone ZM_BFc0079O03 mRNA, complete cds.
GenBank	BT088090	1e-122	BT088090.1 Zea mays full-length cDNA clone ZM_BFc0009P17 mRNA, complete cds.
GenBank	BT088299	1e-122	BT088299.1 Zea mays full-length cDNA clone ZM_BFc0123M15 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_022679432.1	0.0	transcription factor TDR, partial
Swissprot	Q6YUS3	0.0	TDR_ORYSJ; Transcription factor TDR
TrEMBL	K3YZ12	0.0	K3YZ12_SETIT; Uncharacterized protein
STRING	Si019518m	0.0	(Setaria italica)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G16910.1	9e-38	bHLH family protein

Link Out ? help Back to Top
Phytozome	Sevir.1G110100.2.p

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]