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

Seita.4G009800.2.p

Common Name

LOC101753501, SETIT_006199mg

Organism

Setaria italica

Taxonomic ID

4555

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: 543aa MW: 57094.7 Da PI: 4.4165

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Seita.4G009800.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	39.9	7.4e-13	293	336	7	55
HHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +Er+RR+++N+a+ +Lr+l+Pk +K++ a+iL A++YI Lq Seita.4G009800.2.p 293 VAERKRRQKLNNALYKLRSLVPKI-----TKMDRASILGDAIDYIVGLQ 336 58*******************7.....7*************9887 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	15.193	286	335	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	5.63E-17	288	349	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.7E-15	292	341	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	2.63E-13	293	340	No hit	No description
Gene3D	G3DSA:4.10.280.10	2.6E-15	293	347	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.8E-10	294	336	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd04873	0.00386	420	484	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0048657	Biological Process	anther wall tapetum cell differentiation
GO:0003677	Molecular Function	DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 543 aa Download sequence Send to blast
MGGGDHPCMA ATAAASAGYG GGSVEAALRP LVGADAWDYC IYWRLSLDER FLEMTGLCCS 60 SEFEAQVSAH GELPSSIPLD SSSAGMHAEA IMSNQPIWQT SSCVPELPTS YSTELGSAGP 120 RTRLLVPIAG GLVELFAARY MAEDEQMAKL VMAQCGVPAR ATEGEGDEGG AAVHTWPEAP 180 GFAWDGADPQ RMYGAVPPSL SLFDAAGDPF LAAPPPGVVD DAAAAGWQYA AAAGSEPSVV 240 AAQQEQHGAA RTGGADSGSE GSDLLGDPEG DGDAQGRGGG KGDGKRQHCK NLVAERKRRQ 300 KLNNALYKLR SLVPKITKMD RASILGDAID YIVGLQNQVK ALQDELEDPA DGAPDVLLDH 360 PPPASLVGLE NDDSPRASLQ QPPASKRARV PAAAPTEEDK GHDMEPQVEV RQVEANEFFL 420 QVLCEHKPGR FVRLMDAVNA LGLDVTNVNV TSYKTLVLNV LRVVRRDNEV AVQADRVRDS 480 LLEVTRESYG VWSSAVGSSG SIDVKLNCVD VKLDGGVDVQ APAAAATAED HYGGYNHLQY 540 LA*

Sequence ? help Back to Top

Protein Sequence Length: 543 aa Download sequence Send to blast

MGGGDHPCMA ATAAASAGYG GGSVEAALRP LVGADAWDYC IYWRLSLDER FLEMTGLCCS  60
SEFEAQVSAH GELPSSIPLD SSSAGMHAEA IMSNQPIWQT SSCVPELPTS YSTELGSAGP  120
RTRLLVPIAG GLVELFAARY MAEDEQMAKL VMAQCGVPAR ATEGEGDEGG AAVHTWPEAP  180
GFAWDGADPQ RMYGAVPPSL SLFDAAGDPF LAAPPPGVVD DAAAAGWQYA AAAGSEPSVV  240
AAQQEQHGAA RTGGADSGSE GSDLLGDPEG DGDAQGRGGG KGDGKRQHCK NLVAERKRRQ  300
KLNNALYKLR SLVPKITKMD RASILGDAID YIVGLQNQVK ALQDELEDPA DGAPDVLLDH  360
PPPASLVGLE NDDSPRASLQ QPPASKRARV PAAAPTEEDK GHDMEPQVEV RQVEANEFFL  420
QVLCEHKPGR FVRLMDAVNA LGLDVTNVNV TSYKTLVLNV LRVVRRDNEV AVQADRVRDS  480
LLEVTRESYG VWSSAVGSSG SIDVKLNCVD VKLDGGVDVQ APAAAATAED HYGGYNHLQY  540
LA*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	294	299	ERKRRQ

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	Seita.4G009800.2.p

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_012700935.1	0.0	transcription factor TDR
Refseq	XP_012700936.1	0.0	transcription factor TDR
Refseq	XP_022681698.1	0.0	transcription factor TDR
Refseq	XP_022681699.1	0.0	transcription factor TDR
Swissprot	Q6YUS3	0.0	TDR_ORYSJ; Transcription factor TDR
TrEMBL	K3XW91	0.0	K3XW91_SETIT; Uncharacterized protein
STRING	Si006199m	0.0	(Setaria italica)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G16910.1	5e-50	bHLH family protein

Link Out ? help Back to Top
Phytozome	Seita.4G009800.2.p
Entrez Gene	101753501

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]