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

Carubv10023324m

Common Name

CARUB_v10023324mg

Organism

Capsella rubella

Taxonomic ID

81985

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: 410aa MW: 46408.7 Da PI: 6.295

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10023324m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	35.3	2e-11	247	293	3	54
HHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS HLH 3 rahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54 r h e+Er+RR+++N+ f Lr ++Pk K++K + L ++ YI++L Carubv10023324m 247 RDHVEAERQRRNNLNQLFYALRAVVPKV-----SKMDKESLLSDTITYINEL 293 5699*********************6.....5*************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF14215	6.0E-43	17	183	IPR025610	Transcription factor MYC/MYB N-terminal
SuperFamily	SSF47459	1.96E-15	241	313	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	1.15E-10	242	297	No hit	No description
PROSITE profile	PS50888	15.421	244	293	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	3.0E-15	248	314	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	5.2E-9	248	293	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	3.4E-13	250	299	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: 410 aa Download sequence Send to blast
MNFSDNSEMW PVETAVQKLL QAVLDGTHRG WTYAIYWQPS FDNSGETVLV WGDGFYKGQE 60 DSKRKTKSTP ADQEPWNKVM LELKPEDSDV IVTDIEWFYL KSMSWSFSRG SGLVGHAFST 120 STPVWVSGSD QIRRSGIERA KEEGDFGGET IACIPLANGV LELGSTELIP QSSDLINKIQ 180 NLFNLNTLHS LSPDWVNVAQ SSSSRVISKS RKLENACSNP TNSSEVPDQK LLKKRVTRSS 240 KSREKPRDHV EAERQRRNNL NQLFYALRAV VPKVSKMDKE SLLSDTITYI NELKAKVDKA 300 VSERNEIEIQ LEEVKKELAE RRVASSKEPE GMEIEVKVIE SYAMIKVKSS KQNHPEARMM 360 KALMDMELEV DHASVVVVND LMVQQATVKM DFKIYTQEQL RIMLISKIN*

Sequence ? help Back to Top

Protein Sequence Length: 410 aa Download sequence Send to blast

MNFSDNSEMW PVETAVQKLL QAVLDGTHRG WTYAIYWQPS FDNSGETVLV WGDGFYKGQE  60
DSKRKTKSTP ADQEPWNKVM LELKPEDSDV IVTDIEWFYL KSMSWSFSRG SGLVGHAFST  120
STPVWVSGSD QIRRSGIERA KEEGDFGGET IACIPLANGV LELGSTELIP QSSDLINKIQ  180
NLFNLNTLHS LSPDWVNVAQ SSSSRVISKS RKLENACSNP TNSSEVPDQK LLKKRVTRSS  240
KSREKPRDHV EAERQRRNNL NQLFYALRAV VPKVSKMDKE SLLSDTITYI NELKAKVDKA  300
VSERNEIEIQ LEEVKKELAE RRVASSKEPE GMEIEVKVIE SYAMIKVKSS KQNHPEARMM  360
KALMDMELEV DHASVVVVND LMVQQATVKM DFKIYTQEQL RIMLISKIN*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4rqw_A	1e-38	13	186	6	195	Transcription factor MYC3
4rqw_B	1e-38	13	186	6	195	Transcription factor MYC3
4rs9_A	1e-38	13	186	6	195	Transcription factor MYC3
4yz6_A	1e-38	13	186	6	195	Transcription factor MYC3
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10023324m

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By UV treatment. {ECO:0000269\|PubMed:12679534}.

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_006294316.2	0.0	transcription factor MYC2
Swissprot	Q9LUK7	1e-108	BH028_ARATH; Transcription factor bHLH28
TrEMBL	R0HCK7	0.0	R0HCK7_9BRAS; Uncharacterized protein
STRING	XP_006294316.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM21760	4	5

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G46830.1	3e-86	NACL-inducible gene 1

Link Out ? help Back to Top
Phytozome	Carubv10023324m
Entrez Gene	17888274

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] Chen X,Huang H,Qi T,Liu B,Song S New perspective of the bHLH-MYB complex in jasmonate-regulated plant fertility in arabidopsis. Plant Signal Behav, 2016. 11(2): p. e1135280 [PMID:26829586] Ezer D, et al. The G-Box Transcriptional Regulatory Code in Arabidopsis. Plant Physiol., 2017. 175(2): p. 628-640 [PMID:28864470] Song S, et al. MYC5 is Involved in Jasmonate-Regulated Plant Growth, Leaf Senescence and Defense Responses. Plant Cell Physiol., 2017. 58(10): p. 1752-1763 [PMID:29017003] Min JH, et al. Arabidopsis Basic Helix-Loop-Helix 34 (bHLH34) Is Involved in Glucose Signaling through Binding to a GAGA Cis-Element. Front Plant Sci, 2017. 8: p. 2100 [PMID:29321786]