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_009147085.1

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: 444aa MW: 48506.9 Da PI: 6.756

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009147085.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	28.7	2.5e-09	253	300	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 +h+ +Er RR++i +++ L+el+P + +k Ka +L + ++Y++sLq XP_009147085.1 253 SHSLAERVRREKISERMKLLQELVPGC----NKVTGKALMLDEIINYVQSLQ 300 8***********************9....677***************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47459	6.41E-17	247	318	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	4.85E-10	247	304	No hit	No description
Gene3D	G3DSA:4.10.280.10	1.3E-16	249	317	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.637	249	299	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.8E-6	253	300	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.2E-10	255	305	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: 444 aa Download sequence Send to blast
MDNELFMNAG VLSHPSEMTS LSSSSPPAML NWASMETHPL EQSISRNVPR DCFFVEKSTL 60 SSLVSPPSEP NFSGGGAGEN YVIRELVGNL GNIGDIYGAP ASFGNGSGSC YATPVMSSPP 120 LDAFSGDSRF AERAARFSCL GSRSFNGRRT NGPVAETASI NGELTRVSSN SALKPPAGES 180 SGESSRKRKA KSKEHSPSTA SPSPNLSKEV EGKEDSDSKR SKKSQENGEN TKSLDPYKDF 240 IHVRARRGQA TDSHSLAERV RREKISERMK LLQELVPGCN KVTGKALMLD EIINYVQSLQ 300 RQVEFLSMKL SSVNTRLDFN MDALMSKDIF PSSNNQQVPQ LESSSHILLA DHHSHTLQLN 360 PNDSSNNIIN PMETSESRSF TTRLPTLAHF TDSISQFSTF SEDDLHSIIH MGLAQNQIRE 420 PNQVHSTSFQ GPSNQVPSHM KAEL

Sequence ? help Back to Top

Protein Sequence Length: 444 aa Download sequence Send to blast

MDNELFMNAG VLSHPSEMTS LSSSSPPAML NWASMETHPL EQSISRNVPR DCFFVEKSTL  60
SSLVSPPSEP NFSGGGAGEN YVIRELVGNL GNIGDIYGAP ASFGNGSGSC YATPVMSSPP  120
LDAFSGDSRF AERAARFSCL GSRSFNGRRT NGPVAETASI NGELTRVSSN SALKPPAGES  180
SGESSRKRKA KSKEHSPSTA SPSPNLSKEV EGKEDSDSKR SKKSQENGEN TKSLDPYKDF  240
IHVRARRGQA TDSHSLAERV RREKISERMK LLQELVPGCN KVTGKALMLD EIINYVQSLQ  300
RQVEFLSMKL SSVNTRLDFN MDALMSKDIF PSSNNQQVPQ LESSSHILLA DHHSHTLQLN  360
PNDSSNNIIN PMETSESRSF TTRLPTLAHF TDSISQFSTF SEDDLHSIIH MGLAQNQIRE  420
PNQVHSTSFQ GPSNQVPSHM KAEL

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_009147085.1

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	AF488595	1e-180	AF488595.1 Arabidopsis thaliana clone bHLH062 putative bHLH transcription factor mRNA, complete cds.
GenBank	AK175369	1e-180	AK175369.1 Arabidopsis thaliana mRNA for putative bHLH transcription factor (bHLH062), complete cds, clone: RAFL21-80-E17.
GenBank	AK175496	1e-180	AK175496.1 Arabidopsis thaliana mRNA for putative bHLH transcription factor (bHLH062), complete cds, clone: RAFL21-92-E09.
GenBank	BT026497	1e-180	BT026497.1 Arabidopsis thaliana At3g07340 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009147085.1	0.0	PREDICTED: transcription factor bHLH62
Swissprot	Q9SRT2	0.0	BH062_ARATH; Transcription factor bHLH62
TrEMBL	M4ELH2	0.0	M4ELH2_BRARP; Uncharacterized protein
STRING	Bra029640.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM2332	27	75

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G07340.1	1e-171	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]