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_009104360.1

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: 355aa MW: 40086.5 Da PI: 6.0688

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009104360.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	26.5	1.1e-08	194	238	6	55
HHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 6 nerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 n E++ R++iN+++ +L+ llP++ +K + ++L +A++Y+ Lq XP_009104360.1 194 NSSEKNQRSDINKKMRKLQNLLPNS-----GKDDNESTLDEAINYMTTLQ 238 678*******************9.....9*************9998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	1.90E-7	183	242	No hit	No description
PROSITE profile	PS50888	12.176	188	237	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	8.37E-13	192	259	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	1.3E-9	194	249	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.6E-6	194	238	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.9E-7	194	243	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: 355 aa Download sequence Send to blast
MMFVLTKLIY CSCRLKDQEY MELVFENGQF LAKSQRSKAF SLENQRTKSI VDLYEDEYNE 60 DFMKSIIHGA DKKLQVCSRN IMFFIVAAYE TKMLMNHHLN LVQSLKASSS KKMVVDYENR 120 KDNEFIPPDE QSVVAERSVE LGFDSTEFTE DSEGSTYLSS SLDDESDDPR PRVPARTRKS 180 LVKRRRSNSN ELYNSSEKNQ RSDINKKMRK LQNLLPNSGK DDNESTLDEA INYMTTLQLQ 240 VQMMTMSNRF AAPAMMLPLG PHYSQMGLPT CMQMGLPQFL PPPVLGSGGN SADMLRFLNH 300 PTGLITPMQN SALFTPMGNY FPPSCAAFPN QIQNSTSLSN LDDATTDGGS LSGKK

Sequence ? help Back to Top

Protein Sequence Length: 355 aa Download sequence Send to blast

MMFVLTKLIY CSCRLKDQEY MELVFENGQF LAKSQRSKAF SLENQRTKSI VDLYEDEYNE  60
DFMKSIIHGA DKKLQVCSRN IMFFIVAAYE TKMLMNHHLN LVQSLKASSS KKMVVDYENR  120
KDNEFIPPDE QSVVAERSVE LGFDSTEFTE DSEGSTYLSS SLDDESDDPR PRVPARTRKS  180
LVKRRRSNSN ELYNSSEKNQ RSDINKKMRK LQNLLPNSGK DDNESTLDEA INYMTTLQLQ  240
VQMMTMSNRF AAPAMMLPLG PHYSQMGLPT CMQMGLPQFL PPPVLGSGGN SADMLRFLNH  300
PTGLITPMQN SALFTPMGNY FPPSCAAFPN QIQNSTSLSN LDDATTDGGS LSGKK

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bra.24337	0.0	root\| silique

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009104360.1

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009104360.1	0.0	PREDICTED: transcription factor PIF6-like isoform X1
Swissprot	Q8L5W7	1e-145	PIF6_ARATH; Transcription factor PIF6
TrEMBL	A0A3P6BGS4	0.0	A0A3P6BGS4_BRACM; Uncharacterized protein
STRING	Bo6g079220.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13423	14	25

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G62090.2	1e-147	phytochrome interacting factor 3-like 2

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] Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Adams E,Diaz C,Hong JP,Shin R 14-3-3 proteins participate in light signaling through association with PHYTOCHROME INTERACTING FACTORs. Int J Mol Sci, 2014. 15(12): p. 22801-14 [PMID:25501334] Galvão VC,Collani S,Horrer D,Schmid M Gibberellic acid signaling is required for ambient temperature-mediated induction of flowering in Arabidopsis thaliana. Plant J., 2015. 84(5): p. 949-62 [PMID:26466761] Gomez EJ,Gerhardt K,Judd J,Tabor JJ,Suh J Light-Activated Nuclear Translocation of Adeno-Associated Virus Nanoparticles Using Phytochrome B for Enhanced, Tunable, and Spatially Programmable Gene Delivery. ACS Nano, 2016. 10(1): p. 225-37 [PMID:26618393] Ochoa-Fernandez R, et al. Optogenetics in Plants: Red/Far-Red Light Control of Gene Expression. Methods Mol. Biol., 2016. 1408: p. 125-39 [PMID:26965120] Gangl R,Tenhaken R Raffinose Family Oligosaccharides Act As Galactose Stores in Seeds and Are Required for Rapid Germination of Arabidopsis in the Dark. Front Plant Sci, 2016. 7: p. 1115 [PMID:27507985] Paik I,Kathare PK,Kim JI,Huq E Expanding Roles of PIFs in Signal Integration from Multiple Processes. Mol Plant, 2017. 10(8): p. 1035-1046 [PMID:28711729]