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

RrC6658_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

bHLH

Protein Properties

Length: 596aa MW: 67921.8 Da PI: 5.0476

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC6658_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	31.5	3.2e-10	318	385	7	55
HHHHHHHHHHHHHHHHHHCTSCC.C.....................TTS-STCHHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPk.as..................kapskKlsKaeiLekAveYIksLq 55 +ErrRR+++N+++ Lr+l+P + Kl+ a+iL A++Y+k+Lq RrC6658_p1 318 LAERRRRKKLNDRLYALRSLVPRiTKvyicgftlngfvslsetsFFVAWKLDRASILGDAINYVKELQ 385 68*******************666**********8887555679***************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF14215	5.7E-18	11	149	IPR025610	Transcription factor MYC/MYB N-terminal
SuperFamily	SSF47459	5.63E-15	303	397	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.81E-10	310	387	No hit	No description
PROSITE profile	PS50888	14.557	311	384	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.4E-11	317	390	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	4.0E-15	318	398	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	8.6E-8	318	385	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009555	Biological Process	pollen development
GO:0048658	Biological Process	anther wall tapetum development
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: 596 aa Download sequence Send to blast
MESSSMQNLL EKLRPLVGAR AWDYCVLWRL NEDQRFVKWM GCCCGGTQLI EENGTEGFSF 60 EGCRDVMFHH PRTKSCDFLA HLPSSIPLDS GIYAETLLTN QTSWLSESSE PGFMQETICT 120 RVLIPIPGGL VELFATRHVA EDQNVVDFVM GNCNMLMDET VTINMMVADE VESKPYGMLS 180 GDIHQKGSKD EEMMNLTSPY DISTDQMRLN FLPQMSEYDA QQHLKVKSDY HHHQELGYLQ 240 ENGSKEMMGM NPFSTEDGMS VMGEPSLLVN EQQVGNDKEM NENGRLDTGS DCSDQIDDED 300 DPKYKKKTGK HSQAKNLLAE RRRRKKLNDR LYALRSLVPR ITKVYICGFT LNGFVSLSET 360 SFFVAWKLDR ASILGDAINY VKELQNEAKE LQDELEENSE TEDGSNRQQV GMSLNGTVVT 420 GFHPGLSCNS NVPSLKQDVD LENANDKGQE MEPQVDVAQL DGREFFVKVI CEYKPGGFTR 480 LMEALDSLGL EVTNANTTRF LSLVSNVFKV EKTDSEMVPA EHVRNSLLEI TRNTSRRWHD 540 DQMATGSMQN EKNEVDYQHY DDHHHHGDHH HLHDPRMNHS AHHHHHHQHI SHYQNQ

Sequence ? help Back to Top

Protein Sequence Length: 596 aa Download sequence Send to blast

MESSSMQNLL EKLRPLVGAR AWDYCVLWRL NEDQRFVKWM GCCCGGTQLI EENGTEGFSF  60
EGCRDVMFHH PRTKSCDFLA HLPSSIPLDS GIYAETLLTN QTSWLSESSE PGFMQETICT  120
RVLIPIPGGL VELFATRHVA EDQNVVDFVM GNCNMLMDET VTINMMVADE VESKPYGMLS  180
GDIHQKGSKD EEMMNLTSPY DISTDQMRLN FLPQMSEYDA QQHLKVKSDY HHHQELGYLQ  240
ENGSKEMMGM NPFSTEDGMS VMGEPSLLVN EQQVGNDKEM NENGRLDTGS DCSDQIDDED  300
DPKYKKKTGK HSQAKNLLAE RRRRKKLNDR LYALRSLVPR ITKVYICGFT LNGFVSLSET  360
SFFVAWKLDR ASILGDAINY VKELQNEAKE LQDELEENSE TEDGSNRQQV GMSLNGTVVT  420
GFHPGLSCNS NVPSLKQDVD LENANDKGQE MEPQVDVAQL DGREFFVKVI CEYKPGGFTR  480
LMEALDSLGL EVTNANTTRF LSLVSNVFKV EKTDSEMVPA EHVRNSLLEI TRNTSRRWHD  540
DQMATGSMQN EKNEVDYQHY DDHHHHGDHH HLHDPRMNHS AHHHHHHQHI SHYQNQ

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	304	325	KKKTGKHSQAKNLLAERRRRKK
2	319	326	ERRRRKKL

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor. Plays a crucial role in tapetum development. Required for male fertility and pollen differentiation, especially during the post-meiotic transcriptional regulation of microspore development within the developing anther (PubMed:12535353). Binds E-box regions in the AHL16/TEK promoter. {ECO:0000269\|PubMed:12535353, ECO:0000269\|PubMed:24804694}.

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	AJ511991	0.0	AJ511991.1 Brassica napus mRNA for bHLH transcription factor.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018437310.1	0.0	PREDICTED: transcription factor ABORTED MICROSPORES
Refseq	XP_018437311.1	0.0	PREDICTED: transcription factor ABORTED MICROSPORES
Refseq	XP_018437312.1	0.0	PREDICTED: transcription factor ABORTED MICROSPORES
Swissprot	Q9ZVX2	0.0	AMS_ARATH; Transcription factor ABORTED MICROSPORES
TrEMBL	A0A3N6R1R6	0.0	A0A3N6R1R6_BRACR; Uncharacterized protein
STRING	Bra002004.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7589	27	41

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G16910.1	0.0	bHLH family protein

Publications ? help Back to Top
Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature. Differentiation, 2010. 80(1): p. 1-8 [PMID:20219281] Jiang J,Zhang Z,Cao J Pollen wall development: the associated enzymes and metabolic pathways. Plant Biol (Stuttg), 2013. 15(2): p. 249-63 [PMID:23252839] Xu J, et al. ABORTED MICROSPORES Acts as a Master Regulator of Pollen Wall Formation in Arabidopsis. Plant Cell, 2014. 26(4): p. 1544-1556 [PMID:24781116] Qian H, et al. Trace concentrations of imazethapyr (IM) affect floral organs development and reproduction in Arabidopsis thaliana: IM-induced inhibition of key genes regulating anther and pollen biosynthesis. Ecotoxicology, 2015. 24(1): p. 163-71 [PMID:25348600] Xiong SX, et al. The transcription factors MS188 and AMS form a complex to activate the expression of CYP703A2 for sporopollenin biosynthesis in Arabidopsis thaliana. Plant J., 2016. 88(6): p. 936-946 [PMID:27460657] Ferguson AC, et al. Biphasic regulation of the transcription factor ABORTED MICROSPORES (AMS) is essential for tapetum and pollen development in Arabidopsis. New Phytol., 2017. 213(2): p. 778-790 [PMID:27787905] Lou Y, et al. Positive regulation of AMS by TDF1 and the formation of a TDF1-AMS complex are required for anther development in Arabidopsis thaliana. New Phytol., 2018. 217(1): p. 378-391 [PMID:28940573] Bi H,Fan W,Zhang P C4 Protein of Sweet Potato Leaf Curl Virus Regulates Brassinosteroid Signaling Pathway through Interaction with AtBIN2 and Affects Male Fertility in Arabidopsis. Front Plant Sci, 2017. 8: p. 1689 [PMID:29021807]