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

Cagra.2481s0020.1.p

Organism

Capsella grandiflora

Taxonomic ID

264402

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 316aa MW: 34843.1 Da PI: 6.0452

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.2481s0020.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	38.7	1.7e-12	76	123	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +h Er RR+++++ f++L llP++ +K +K++i+ +Ave IksL+ Cagra.2481s0020.1.p 76 MHIWTERERRKKMRDMFSKLHALLPQL----PPKADKSTIVDEAVETIKSLE 123 56678*******************6....39***************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	13.605	72	122	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	2.0E-14	75	133	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	5.63E-14	75	134	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	4.84E-12	75	127	No hit	No description
Pfam	PF00010	1.0E-9	77	123	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.7E-6	80	128	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009793	Biological Process	embryo development ending in seed dormancy
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 316 aa Download sequence Send to blast
MTNAQEFGQE GFMWGISNSD DSGGGCQKSE KQLPPSQPSL LSSQIQIETA RKVAKGRKRT 60 KRSDENDAEE APDHEMHIWT ERERRKKMRD MFSKLHALLP QLPPKADKST IVDEAVETIK 120 SLELTLKKLQ EQKLEKFCQY SSASTSTTPT TTFAYDPSSS SSPTTTLPTP ISSSNHPQIL 180 AAADSYSREA FLADHISSSN TAVVNPPYPC GDPIAAFDTW SSRNVVLNIC GNEAFFNLCF 240 PKGKSGVFTS VCYLFEKYNL EVLYANVSSN IFWSTYMIQA QVNPSYANQL LGNGFGVGEI 300 FKQVAQDLVL CFSSP*

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that controls embryo growth (PubMed:18567831, PubMed:18849529, PubMed:23318634). Regulates endosperm breakdown and embryonic epidermal development. Regulates the expression of SBT2.4/ALE1 (PubMed:18849529, PubMed:23318634). Involved in embryonic cuticle formation upstream of SBT2.4/ALE1 (PubMed:23318634). Does not seem to be a general regulator of endosperm patterning. May control specific signaling pathways that coordinate embryo invasion and breakdown of surrounding endosperm tissues (PubMed:18849529). Required for the production the embryo sheath, an extracuticular endosperm-derived structure at the surface of the embryo. Acts upstream of KRS (PubMed:28696222). {ECO:0000269\|PubMed:18567831, ECO:0000269\|PubMed:18849529, ECO:0000269\|PubMed:23318634, ECO:0000269\|PubMed:28696222}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Cagra.2481s0020.1.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_006304908.2	0.0	transcription factor bHLH95
Swissprot	Q9FXA3	1e-156	BH095_ARATH; Transcription factor bHLH95
TrEMBL	R0GPU7	0.0	R0GPU7_9BRAS; Uncharacterized protein
STRING	Cagra.2481s0020.1.p	0.0	(Capsella grandiflora)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5074	25	49

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G49770.1	1e-131	bHLH family protein

Link Out ? help Back to Top
Phytozome	Cagra.2481s0020.1.p

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] Zhang Y, et al. Reduced function of the RNA-binding protein FPA rescues a T-DNA insertion mutant in the Arabidopsis ZHOUPI gene by promoting transcriptional read-through. Plant Mol. Biol., 2016. 91(4-5): p. 549-61 [PMID:27164978] Fourquin C, et al. Mechanical stress mediated by both endosperm softening and embryo growth underlies endosperm elimination in Arabidopsis seeds. Development, 2016. 143(18): p. 3300-5 [PMID:27287798] Du Q,Wang H Retarded Embryo Development 1 (RED1) regulates embryo development, seed maturation and plant growth in Arabidopsis. J Genet Genomics, 2016. 43(7): p. 439-49 [PMID:27477025] Moussu S, et al. ZHOUPI and KERBEROS Mediate Embryo/Endosperm Separation by Promoting the Formation of an Extracuticular Sheath at the Embryo Surface. Plant Cell, 2017. 29(7): p. 1642-1656 [PMID:28696222]