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

XP_009136344.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 568aa MW: 64491.8 Da PI: 4.9791

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009136344.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	39.3	1.2e-12	316	359	7	55
HHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 7 erErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +ErrRR+++N+++ Lr+l+P +Kl+ a+iL A++Y+k+Lq XP_009136344.1 316 HAERRRRKKLNDRLYALRSLVPRI-----TKLDRASILGDAINYVKELQ 359 68*******************7.....7****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF14215	1.6E-17	10	148	IPR025610	Transcription factor MYC/MYB N-terminal
CDD	cd00083	1.36E-14	308	361	No hit	No description
PROSITE profile	PS50888	16.247	309	358	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	4.19E-17	311	372	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	7.7E-16	315	364	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	3.2E-10	316	359	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	3.4E-16	317	371	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: 568 aa Download sequence Send to blast
MESNMQNLLE KLRPLVGARA WDYCVLWRLN EDQRFVKWMG CCCGGTQLIE EAGTEEFSFG 60 SCRDVMFHHP RTKSCEVLSH LPSSIPLDSG IYAETLLTNQ TGWLTESSEP GFMQETICTR 120 VLVPIPGGLV ELFATRHVAE DQNVVDFVMG HCNMLMDETV TINMMVGVEV ESKPYGMLLP 180 GDIHQKGSSK DEEMMNLPSP YDISADQIRL NFLPQMNDYE SQQHLKMKSD YDHHHQTLGY 240 DLPENGNNMN PFNTVAEEGM SVMGEASLLV NEQQVGNDKE MNENATGSDC SDQIDDEDDP 300 KCKKKTGKHT QAKNLHAERR RRKKLNDRLY ALRSLVPRIT KLDRASILGD AINYVKELQN 360 EAKELQDELE DNSETEDGSN RQQGGMSMNG TVLTGFHQGL SCNSNLPDMK QDVDLENCND 420 KGQEMEPQVD VAHLDGREFF VKVICEYKPG GFTRLMEALD SLGLEVTNAN TTRFLSLVSN 480 VFKVEKNDSE MVPAEHVRNS LLEITRNTSR GWHDDQMATG SIQNEKNEVG YQHYDDHHHH 540 GGHHQLHDHQ MNQSAHHHHQ HINHYQNQ

Sequence ? help Back to Top

Protein Sequence Length: 568 aa Download sequence Send to blast

MESNMQNLLE KLRPLVGARA WDYCVLWRLN EDQRFVKWMG CCCGGTQLIE EAGTEEFSFG  60
SCRDVMFHHP RTKSCEVLSH LPSSIPLDSG IYAETLLTNQ TGWLTESSEP GFMQETICTR  120
VLVPIPGGLV ELFATRHVAE DQNVVDFVMG HCNMLMDETV TINMMVGVEV ESKPYGMLLP  180
GDIHQKGSSK DEEMMNLPSP YDISADQIRL NFLPQMNDYE SQQHLKMKSD YDHHHQTLGY  240
DLPENGNNMN PFNTVAEEGM SVMGEASLLV NEQQVGNDKE MNENATGSDC SDQIDDEDDP  300
KCKKKTGKHT QAKNLHAERR RRKKLNDRLY ALRSLVPRIT KLDRASILGD AINYVKELQN  360
EAKELQDELE DNSETEDGSN RQQGGMSMNG TVLTGFHQGL SCNSNLPDMK QDVDLENCND  420
KGQEMEPQVD VAHLDGREFF VKVICEYKPG GFTRLMEALD SLGLEVTNAN TTRFLSLVSN  480
VFKVEKNDSE MVPAEHVRNS LLEITRNTSR GWHDDQMATG SIQNEKNEVG YQHYDDHHHH  540
GGHHQLHDHQ MNQSAHHHHQ HINHYQNQ

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	302	323	KKKTGKHTQAKNLHAERRRRKK
2	317	324	ERRRRKKL

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: First observed a bud stage of 0.6-mm, shortly after microspore release from the postmeiotic tetrads. Later restricted within the tapetum, microspores and anther locule. Still visible within the haploid nuclei, each of which had migrated to the pollen cell wall prior to pollen mitosis I. Not expressed later. {ECO:0000269\|PubMed:12535353}.
Uniprot	TISSUE SPECIFICITY: Mostly expressed in closed, post-meiotic buds, and, to a lower extent, in pre-meiotic buds. Detected in leaves, stems, and flowers. {ECO:0000269\|PubMed:12535353, ECO:0000269\|PubMed:12679534}.

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009136344.1

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_009136343.1	0.0	PREDICTED: transcription factor ABORTED MICROSPORES-like
Refseq	XP_009136344.1	0.0	PREDICTED: transcription factor ABORTED MICROSPORES-like
Refseq	XP_009136346.1	0.0	PREDICTED: transcription factor ABORTED MICROSPORES-like
Swissprot	Q9ZVX2	0.0	AMS_ARATH; Transcription factor ABORTED MICROSPORES
TrEMBL	M4D981	0.0	M4D981_BRARP; Uncharacterized protein
STRING	Bra013041.1-P	0.0	(Brassica rapa)

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]