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

RrC5562_p1

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: 354aa MW: 39772.6 Da PI: 4.8063

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC5562_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	39.1	1.3e-12	183	226	6	54
HHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS HLH 6 nerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 ++ErrRR+r+N++++ Lr+++Pk + K++ +iL A++Y+k+L RrC5562_p1 183 LMAERRRRKRLNDRLSMLRSIVPKiS------KMDRTSILGDAIDYMKEL 226 589*******************66......**************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	15.643	177	226	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	2.49E-16	180	245	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	5.0E-13	183	232	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.8E-10	183	226	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	3.34E-5	184	230	No hit	No description
Gene3D	G3DSA:4.10.280.10	5.1E-17	184	240	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: 354 aa Download sequence Send to blast
MELSTQMNVF EELLVPTKQE TTDNYNISNL RFNGGFDHHQ LFSNGWNIDY LCFNNEEEDE 60 NTLLYSSSFM NLISQPPPLL LHQTPPLPPP SSSSPPLISS TALTFDDPFL EVLQEIIDSS 120 SSSPQVTLPT SQEESFINQS SYPSPLVESD QSKSFSVGYC GGGGETISKK KSKKLEGQPS 180 KNLMAERRRR KRLNDRLSML RSIVPKISKM DRTSILGDAI DYMKELSDKI NKLQEEEQEL 240 GVSNSSHHSK LFGDIKDLNT KEHLVRNSPK FEVDRRDQDT RVEICCSPKP GLLLSTVNTL 300 ETLGLEIEQC VISCFSDFSL HASCSEVAQQ RDFINSEDIK QALFRNAGYG GKCL

Sequence ? help Back to Top

Protein Sequence Length: 354 aa Download sequence Send to blast

MELSTQMNVF EELLVPTKQE TTDNYNISNL RFNGGFDHHQ LFSNGWNIDY LCFNNEEEDE  60
NTLLYSSSFM NLISQPPPLL LHQTPPLPPP SSSSPPLISS TALTFDDPFL EVLQEIIDSS  120
SSSPQVTLPT SQEESFINQS SYPSPLVESD QSKSFSVGYC GGGGETISKK KSKKLEGQPS  180
KNLMAERRRR KRLNDRLSML RSIVPKISKM DRTSILGDAI DYMKELSDKI NKLQEEEQEL  240
GVSNSSHHSK LFGDIKDLNT KEHLVRNSPK FEVDRRDQDT RVEICCSPKP GLLLSTVNTL  300
ETLGLEIEQC VISCFSDFSL HASCSEVAQQ RDFINSEDIK QALFRNAGYG GKCL

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	168	190	KKKSKKLEGQPSKNLMAERRRRK
2	185	192	ERRRRKRL

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor. May be involved in the differentiation of stomatal guard cells. {ECO:0000269\|PubMed:17088607}.

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_018441732.1	0.0	PREDICTED: transcription factor bHLH93-like isoform X2
Refseq	XP_018441885.1	0.0	PREDICTED: transcription factor bHLH93-like isoform X2
Swissprot	Q9LSL1	0.0	BH093_ARATH; Transcription factor bHLH93
TrEMBL	M4ESS2	0.0	M4ESS2_BRARP; Uncharacterized protein
STRING	Bra031852.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2043	28	78

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G65640.1	0.0	beta HLH protein 93

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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Sharma N, et al. NO FLOWERING IN SHORT DAY (NFL) is a bHLH transcription factor that promotes flowering specifically under short-day conditions in Arabidopsis. Development, 2016. 143(4): p. 682-90 [PMID:26758694] Chen YS, et al. Two MYB-related transcription factors play opposite roles in sugar signaling in Arabidopsis. Plant Mol. Biol., 2017. 93(3): p. 299-311 [PMID:27866313] Ezer D, et al. The G-Box Transcriptional Regulatory Code in Arabidopsis. Plant Physiol., 2017. 175(2): p. 628-640 [PMID:28864470]