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.1261s0004.1.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: 172aa MW: 20033.8 Da PI: 5.0928

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.1261s0004.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	26.9	8.7e-09	99	140	8	54
HHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS HLH 8 rErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 + rrRR+ri +++ L++++P a K++ a++L +A++Y k L Cagra.1261s0004.1.p 99 VARRRRERISEKIRILKRIVPGgA------KMDTASMLDEAIRYTKFL 140 569****************966......************8877 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	14.164	91	140	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	2.3E-12	96	148	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.1E-11	97	146	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	2.62E-13	97	150	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	5.86E-10	97	145	No hit	No description
Pfam	PF00010	3.1E-6	100	140	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010197	Biological Process	polar nucleus fusion
GO:0005634	Cellular Component	nucleus
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 172 aa Download sequence Send to blast
MEPQPHHLLM DWNKANNDPI TQEEYPFLHD PPPQLMLDPP PETLIHLEED DEEYDEEMDA 60 MKEMQYMVAV MQPVDIDPST VPKPNRRNVR ISDDPQTVVA RRRRERISEK IRILKRIVPG 120 GAKMDTASML DEAIRYTKFL KRQVRILQPH SQIGAPMADP SYLCYYHNSQ T*

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription regulator required for seed dispersal. Involved in the differentiation of all three cell types required for fruit dehiscence. Acts as the key regulator in a network including SHP and ALC that controls specification of the valve margin. Works with ALC, SHP, and FUL to allow differentiation of the lignified valve layer, the spring-loaded mechanism of fruit that promotes opening. Regulates the expression of the YJ80 marker. {ECO:0000269\|PubMed:15035986}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Cagra.1261s0004.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By FUL, which restrict its expression to the margins.

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	AL161471	0.0	AL161471.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 1.
GenBank	BT029443	0.0	BT029443.1 Arabidopsis thaliana At4g00120 mRNA, complete cds.
GenBank	CP002687	0.0	CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
GenBank	F6N15	0.0	AF069299.1 Arabidopsis thaliana BAC F6N15.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006289610.2	1e-122	LOW QUALITY PROTEIN: transcription factor IND
Swissprot	O81313	6e-98	IND_ARATH; Transcription factor IND
TrEMBL	R0HFJ7	1e-120	R0HFJ7_9BRAS; Uncharacterized protein
STRING	Cagra.1261s0004.1.p	1e-123	(Capsella grandiflora)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4449	27	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G00120.1	6e-71	bHLH family protein

Link Out ? help Back to Top
Phytozome	Cagra.1261s0004.1.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] Pabón-Mora N,Wong GK,Ambrose BA Evolution of fruit development genes in flowering plants. Front Plant Sci, 2014. 5: p. 300 [PMID:25018763] Moubayidin L,Ostergaard L Dynamic control of auxin distribution imposes a bilateral-to-radial symmetry switch during gynoecium development. Curr. Biol., 2014. 24(22): p. 2743-8 [PMID:25455035] Jaradat MR,Ruegger M,Bowling A,Butler H,Cutler AJ A comprehensive transcriptome analysis of silique development and dehiscence in Arabidopsis and Brassica integrating genotypic, interspecies and developmental comparisons. GM Crops Food, 2014. 5(4): p. 302-20 [PMID:25523176] van Gelderen K,van Rongen M,Liu A,Otten A,Offringa R An INDEHISCENT-Controlled Auxin Response Specifies the Separation Layer in Early Arabidopsis Fruit. Mol Plant, 2016. 9(6): p. 857-69 [PMID:26995296] Balanzà V,Roig-Villanova I,Di Marzo M,Masiero S,Colombo L Seed abscission and fruit dehiscence required for seed dispersal rely on similar genetic networks. Development, 2016. 143(18): p. 3372-81 [PMID:27510967] Pfannebecker KC,Lange M,Rupp O,Becker A Seed Plant-Specific Gene Lineages Involved in Carpel Development. Mol. Biol. Evol., 2017. 34(4): p. 925-942 [PMID:28087776] He H, et al. CELLULASE6 and MANNANASE7 Affect Cell Differentiation and Silique Dehiscence. Plant Physiol., 2018. 176(3): p. 2186-2201 [PMID:29348141] Simonini S,Stephenson P,Østergaard L A molecular framework controlling style morphology in Brassicaceae. Development, 2018. [PMID:29440299] Li XR,Deb J,Kumar SV,Østergaard L Temperature Modulates Tissue-Specification Program to Control Fruit Dehiscence in Brassicaceae. Mol Plant, 2018. 11(4): p. 598-606 [PMID:29449088]