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

XP_009104076.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

bHLH

Protein Properties

Length: 343aa MW: 37799 Da PI: 6.9701

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009104076.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	27.4	5.9e-09	187	234	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +h+ +Er RR++iN ++ L+el+P + +k a +L + +++++sLq XP_009104076.1 187 SHSLAERARREKINARMKLLQELVPGC----DKIQGTALVLDEIINHVQSLQ 234 8***********************9....889**************99 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47459	2.09E-15	181	252	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	8.70E-9	181	238	No hit	No description
PROSITE profile	PS50888	14.684	183	233	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	3.9E-15	183	251	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.4E-6	187	234	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.7E-8	189	239	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: 343 aa Download sequence Send to blast
MDLTGEFGAR SDRGERCREV TGLESLHLGD EFRQLALPPE NTGGVTALLE LPPTQAVNLL 60 RFTDSPSSSS QAAAVTGIAP TPPLHSYGTL TFPSNSLLME RAARFSTEHQ QNGNVSGTSS 120 VPSNSSVKTE PAETDSSQAV NSRSGKRKDS DKKAKSSTKK KKNKSSEENE KLPYVHVRAR 180 RGQATDSHSL AERARREKIN ARMKLLQELV PGCDKIQGTA LVLDEIINHV QSLQRQVEML 240 SMRLASVNPR VDFNLDTILA SENGSLMDGS FNGTAMQVAW PHQVTETEQS YHHRQLQQPQ 300 QWPFDGLNQR AWGKEEDQDH GNDHNSLMVG SANLHPSQVK MEL

Sequence ? help Back to Top

Protein Sequence Length: 343 aa Download sequence Send to blast

MDLTGEFGAR SDRGERCREV TGLESLHLGD EFRQLALPPE NTGGVTALLE LPPTQAVNLL  60
RFTDSPSSSS QAAAVTGIAP TPPLHSYGTL TFPSNSLLME RAARFSTEHQ QNGNVSGTSS  120
VPSNSSVKTE PAETDSSQAV NSRSGKRKDS DKKAKSSTKK KKNKSSEENE KLPYVHVRAR  180
RGQATDSHSL AERARREKIN ARMKLLQELV PGCDKIQGTA LVLDEIINHV QSLQRQVEML  240
SMRLASVNPR VDFNLDTILA SENGSLMDGS FNGTAMQVAW PHQVTETEQS YHHRQLQQPQ  300
QWPFDGLNQR AWGKEEDQDH GNDHNSLMVG SANLHPSQVK MEL

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	145	161	KRKDSDKKAKSSTKKKK

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.12732	1e-125	bud\| seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed constitutively in roots, leaves, stems, and flowers. {ECO:0000269\|PubMed:12679534}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009104076.1

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	AK352728	0.0	AK352728.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-02-C12.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009104076.2	0.0	PREDICTED: transcription factor bHLH60-like
Swissprot	Q3EAI1	1e-169	BH060_ARATH; Transcription factor bHLH60
TrEMBL	M4CGG7	0.0	M4CGG7_BRARP; Uncharacterized protein
STRING	Bra003300.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2576	27	71

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G57800.2	1e-157	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] Li Y,Wang H,Li X,Liang G,Yu D Two DELLA-interacting proteins bHLH48 and bHLH60 regulate flowering under long-day conditions in Arabidopsis thaliana. J. Exp. Bot., 2017. 68(11): p. 2757-2767 [PMID:28591805]