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_01001.1_g00008.1

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: 388aa MW: 42466.1 Da PI: 7.6605

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_01001.1_g00008.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	47.6	3e-15	203	248	5	55
HHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 5 hnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 hn+ Er+RR++iN+++ +L++l+P++ K +Ka++L +++eY+k+Lq Rsa1.0_01001.1_g00008.1 203 HNQSERKRREKINQRMKTLQKLVPNS-----SKTDKASMLDEVIEYLKQLQ 248 9**********************8.....7****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47459	1.83E-18	196	259	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	17.771	198	247	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	6.9E-17	203	258	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	5.51E-17	203	252	No hit	No description
Pfam	PF00010	7.9E-13	203	248	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.1E-17	204	253	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: 388 aa Download sequence Send to blast
MSQRVPYCHI DETPAATVRS TKAADIPMLN YEVAELTWEN GQLGLHSLGP TPVPAPSKYF 60 TGAGGTLESI VDQATRFPNP KPTDELVPWF HPRSSTAGLD ALVPEQQSHP PTHVDSCSNG 120 HPMAGVKRAR VASGWSTGGS QNLTFETYGF TSTSLDDNSS SGGKPCTKTS NIYGHDSMEE 180 EEEKQAGGKS SVSTKRSSAA VIHNQSERKR REKINQRMKT LQKLVPNSSK TDKASMLDEV 240 IEYLKQLQAQ VSMMCRMNMP SMMLPMAMQQ QQQQLQLSLM SSSMGLGLGM GMPGLGLLDL 300 NSMNRAAATA PNIHANMMPN PFVPMTSPSW EASSSTDTRF QSPLIHDPMP AFLSRSSQQT 360 TMEAYSRMAA LYYQQMQQQM IPTPSNPK

Sequence ? help Back to Top

Protein Sequence Length: 388 aa Download sequence Send to blast

MSQRVPYCHI DETPAATVRS TKAADIPMLN YEVAELTWEN GQLGLHSLGP TPVPAPSKYF  60
TGAGGTLESI VDQATRFPNP KPTDELVPWF HPRSSTAGLD ALVPEQQSHP PTHVDSCSNG  120
HPMAGVKRAR VASGWSTGGS QNLTFETYGF TSTSLDDNSS SGGKPCTKTS NIYGHDSMEE  180
EEEKQAGGKS SVSTKRSSAA VIHNQSERKR REKINQRMKT LQKLVPNSSK TDKASMLDEV  240
IEYLKQLQAQ VSMMCRMNMP SMMLPMAMQQ QQQQLQLSLM SSSMGLGLGM GMPGLGLLDL  300
NSMNRAAATA PNIHANMMPN PFVPMTSPSW EASSSTDTRF QSPLIHDPMP AFLSRSSQQT  360
TMEAYSRMAA LYYQQMQQQM IPTPSNPK

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	206	211	ERKRRE
2	207	212	RKRREK

Functional Description ? help Back to Top
Source	Description
UniProt	Required during the fertilization of ovules by pollen. {ECO:0000269\|PubMed:15634699}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_01001.1_g00008.1

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

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	AK117229	0.0	AK117229.1 Arabidopsis thaliana At4g00050 mRNA for putative bHLH transcription factor (bHLH016), complete cds, clone: RAFL16-78-C08.
GenBank	BT025971	0.0	BT025971.1 Arabidopsis thaliana At4g00050 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018455997.1	0.0	PREDICTED: transcription factor UNE10-like
Refseq	XP_018456003.1	0.0	PREDICTED: transcription factor UNE10-like
Swissprot	Q8GZ38	1e-164	UNE10_ARATH; Transcription factor UNE10
TrEMBL	A0A3P5XT61	0.0	A0A3P5XT61_BRACM; Uncharacterized protein
STRING	Bra000560.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3919	24	51

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G00050.1	1e-161	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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444]