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

Carubv10006445m

Common Name

CARUB_v10006445mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 262aa MW: 29511.7 Da PI: 5.6237

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10006445m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	57.7	2.1e-18	35	86	2	55
HHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 2 rrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 r +h+e E+rRR++iN++f+ L e++P++ ++++K +Ka+ L +++eYI+ Lq Carubv10006445m 35 RSKHSETEQRRRSKINERFQSLMEIIPQN--QNDQKRDKASFLLEVIEYIHFLQ 86 899***********************6..4******************99 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	1.21E-17	31	90	No hit	No description
SuperFamily	SSF47459	1.96E-19	31	113	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	16.99	33	85	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	7.0E-16	35	86	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	8.8E-21	35	100	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	9.4E-14	39	91	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006351	Biological Process	transcription, DNA-templated
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 262 aa Download sequence Send to blast
MNSPDLDEQL DGDVYSNLPS RNDSSTGRRN RSSGRSKHSE TEQRRRSKIN ERFQSLMEII 60 PQNQNDQKRD KASFLLEVIE YIHFLQEKVQ MYEGSQQLWC QTPTKLIPWR NSHGSVVEIG 120 DHPQIVSSYD KVAASSGLLL DMQNSLDSDI DSAVSTKILE HSPTSAVSCY VPTEPFSQFV 180 QHDFWQPKPS CGSITCNTNE LVNSDEKTSP SLSTVCSQRV LHTLTEAFKS SGVNMSETVI 240 SVQLSLRKRA DREYSVTAFA SE

Functional Description ? help Back to Top
Source	Description
UniProt	Positive brassinosteroid-signaling protein.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00534	DAP	Transfer from AT5G38860	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10006445m

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	AJ630499	0.0	AJ630499.1 Arabidopsis thaliana mRNA for hypothetical protein, clone At5g38860.
GenBank	BT033131	0.0	BT033131.1 Arabidopsis thaliana unknown protein (At5g38860) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006285112.2	0.0	transcription factor BIM3
Swissprot	Q9FMB6	1e-156	BIM3_ARATH; Transcription factor BIM3
TrEMBL	R0H0C0	0.0	R0H0C0_9BRAS; Uncharacterized protein (Fragment)
STRING	XP_006285112.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM16131	11	14

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G38860.1	1e-145	BES1-interacting Myc-like protein 3

Link Out ? help Back to Top
Phytozome	Carubv10006445m
Entrez Gene	17878254

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]