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

RrC4247_p4

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: 193aa MW: 21006.8 Da PI: 6.2664

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC4247_p4	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	42.5	1.2e-13	81	122	9	55
HHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 9 ErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 ++rRR++iN+++ L++l+P++ K +Ka++L +A+eY+k+Lq RrC4247_p4 81 DKRRRSKINEKMKALQKLIPNS-----NKTDKASMLDEAIEYLKQLQ 122 59*****************7.....5****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	14.9	72	121	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	5.9E-14	78	127	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	5.5E-11	81	122	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.4E-16	81	129	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	2.75E-16	81	129	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	3.45E-14	82	126	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010047	Biological Process	fruit dehiscence
GO:0005634	Cellular Component	nucleus
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 193 aa Download sequence Send to blast
MGSSDDGHSL PTPCSSDELS SILRQILSRA PTTQPSSPPK RNVSSAEMFD RNFLFVSGGA 60 VSTAAGYAVA ENGEDKCAFE DKRRRSKINE KMKALQKLIP NSNKTDKASM LDEAIEYLKQ 120 LQLQVQTLAV MNGLGLNPLR LPPVRAPTQT RMISGTLEQD LNFETLLGAP HSLANHEPSE 180 ATQEMCFSTA TLL

Functional Description ? help Back to Top
Source	Description
UniProt	Required for the dehiscence of fruit, especially for the separation of the valve cells from the replum. Promotes the differentiation of a strip of labile nonlignified cells sandwiched between layers of lignified cells. {ECO:0000269\|PubMed:11747817}.

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_018464181.1	1e-126	PREDICTED: LOW QUALITY PROTEIN: transcription factor ALC-like
Swissprot	Q9FHA2	3e-88	ALC_ARATH; Transcription factor ALC
TrEMBL	A0A1J3JKY3	5e-95	A0A1J3JKY3_NOCCA; Transcription factor ALC (Fragment)
STRING	XP_006393909.1	1e-95	(Eutrema salsugineum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13982	17	24

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G67110.1	2e-80	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] Pabón-Mora N,Wong GK,Ambrose BA Evolution of fruit development genes in flowering plants. Front Plant Sci, 2014. 5: p. 300 [PMID:25018763] 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] Zumajo-Cardona C,Ambrose BA,Pabón-Mora N Evolution of the SPATULA/ALCATRAZ gene lineage and expression analyses in the basal eudicot, Bocconia frutescens L. (Papaveraceae). Evodevo, 2017. 8: p. 5 [PMID:28331573] He H, et al. CELLULASE6 and MANNANASE7 Affect Cell Differentiation and Silique Dehiscence. Plant Physiol., 2018. 176(3): p. 2186-2201 [PMID:29348141]