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_009140386.1

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: 322aa MW: 36213.3 Da PI: 7.0755

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009140386.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	37.1	5.6e-12	147	193	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 h +Er+RR+++ ++f L +P + kK++Ka++L A+++Ik+Lq XP_009140386.1 147 DHILAERKRREKLTQRFVALSAQIPGL-----KKMDKASVLGDAIKHIKYLQ 193 5899*********************.....9****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	15.072	143	192	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	8.7E-10	147	193	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.4E-16	147	209	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	6.37E-12	148	197	No hit	No description
SuperFamily	SSF47459	2.22E-16	148	212	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.0E-14	149	198	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: 322 aa Download sequence Send to blast
MATTMNVFST KWSSEMDIEE YSIIHQYHMN SFLGDFPQSL SSLDDTTTCY NFDASCDDDL 60 LEEKPSKILK TTHVLPKLYP CPSYNPPPQS QPPSRILSFE KTGLKVMNHN SPNLIFSPKK 120 EVGSPDLITR GTKRAQPLTR SQSNAQDHIL AERKRREKLT QRFVALSAQI PGLKKMDKAS 180 VLGDAIKHIK YLQESVKEYE EQKKERTMES MVLVKKSQLV LDENYQLSSS SSDGNRDCSS 240 SNLPEMEVRV SGNDVLIKIL CEKQNCNLIK IMSEVEKLGL SITNSSVLPF GPTFDISIIS 300 QKTSNFDMKV EDVVKSLSCG LS

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	151	156	ERKRRE
2	152	157	RKRREK

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

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00273	DAP	Transfer from AT2G22750	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009140386.1

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	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	DQ446549	0.0	DQ446549.1 Arabidopsis thaliana clone pENTR221-At2g22750 basic helix-loop-helix family protein (At2g22750) mRNA, complete cds.
GenBank	DQ653015	0.0	DQ653015.1 Arabidopsis thaliana clone 0000017319_0000012121 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009140386.1	0.0	PREDICTED: transcription factor bHLH18
Swissprot	Q1PF17	1e-146	BH018_ARATH; Transcription factor bHLH18
TrEMBL	A0A397ZU18	0.0	A0A397ZU18_BRACM; Uncharacterized protein
TrEMBL	M4EN40	0.0	M4EN40_BRARP; Uncharacterized protein
STRING	Bra030210.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM492	27	146

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G22750.2	1e-144	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]