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

Rsa1.0_04103.1_g00001.1

Organism

Raphanus sativus

Taxonomic ID

3726

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: 493aa MW: 54456.2 Da PI: 5.3834

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_04103.1_g00001.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	35.7	1.5e-11	324	369	4	54
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54 +h e+Er RR+++N++f Lr +P+ K++Ka+ L A+ YI++L Rsa1.0_04103.1_g00001.1 324 NHVEAERLRREKLNQRFYALRATVPNV-----SKMDKASLLGDAICYINEL 369 799*********************6.....5*************998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF14215	2.3E-44	39	206	IPR025610	Transcription factor MYC/MYB N-terminal
PROSITE profile	PS50888	16.279	320	369	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	3.27E-16	323	390	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	4.38E-12	323	370	No hit	No description
Pfam	PF00010	6.7E-9	324	369	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	2.9E-15	324	390	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	4.3E-13	326	375	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: 493 aa Download sequence Send to blast
MDSSNTNVTA SMIDALMSSP SSSFWPPLSP ANPSPDIALQ KRLQAVLNGT HEAWTYAIFW 60 TPSYYDYSGE SVVKWGDGIY KGQEADKTRR RRPRRTTMIS DEALPMVYDE NDVEVSDTEW 120 FYVVSMAASF GSETGLPGKA FATYKPVWVT GSDQILGLGC DRAKQGGASG LRTIVCIPLD 180 NGVLELGSTV EIQQNSDLMN KIRVVFSFEG TRDFSGDPSS NSFPLFSTQL ENGGGSSTVT 240 VNANRYPNPV YPQTVNFATE EALHSPNRSY PGQMQNDDGE LLHVVEDMDG SDHSDIVAAT 300 VARENMQKKK RGRKLANGRK EPLNHVEAER LRREKLNQRF YALRATVPNV SKMDKASLLG 360 DAICYINELK LRAENAESEK NAIQIELNKL REEIAGRNAT SSVPRGGQNA SEIETASIDV 420 KVFGCDVMVR LESSKTNHPA ARLMSAFMDL DVELNHASIS VIHDLMVQQA TVKMGSRMYT 480 QEQLQAMLVS KIN

Sequence ? help Back to Top

Protein Sequence Length: 493 aa Download sequence Send to blast

MDSSNTNVTA SMIDALMSSP SSSFWPPLSP ANPSPDIALQ KRLQAVLNGT HEAWTYAIFW  60
TPSYYDYSGE SVVKWGDGIY KGQEADKTRR RRPRRTTMIS DEALPMVYDE NDVEVSDTEW  120
FYVVSMAASF GSETGLPGKA FATYKPVWVT GSDQILGLGC DRAKQGGASG LRTIVCIPLD  180
NGVLELGSTV EIQQNSDLMN KIRVVFSFEG TRDFSGDPSS NSFPLFSTQL ENGGGSSTVT  240
VNANRYPNPV YPQTVNFATE EALHSPNRSY PGQMQNDDGE LLHVVEDMDG SDHSDIVAAT  300
VARENMQKKK RGRKLANGRK EPLNHVEAER LRREKLNQRF YALRATVPNV SKMDKASLLG  360
DAICYINELK LRAENAESEK NAIQIELNKL REEIAGRNAT SSVPRGGQNA SEIETASIDV  420
KVFGCDVMVR LESSKTNHPA ARLMSAFMDL DVELNHASIS VIHDLMVQQA TVKMGSRMYT  480
QEQLQAMLVS KIN

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4rqw_A	2e-40	38	208	8	194	Transcription factor MYC3
4rqw_B	2e-40	38	208	8	194	Transcription factor MYC3
4rs9_A	2e-40	38	208	8	194	Transcription factor MYC3
4yz6_A	2e-40	38	208	8	194	Transcription factor MYC3
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_04103.1_g00001.1

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_018455076.1	0.0	PREDICTED: transcription factor bHLH28-like
Swissprot	Q9LUK7	1e-160	BH028_ARATH; Transcription factor bHLH28
TrEMBL	A0A3P6EGM8	0.0	A0A3P6EGM8_BRAOL; Uncharacterized protein
STRING	Bo01130s010.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13953	16	24

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G46830.1	1e-153	NACL-inducible gene 1

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]