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

907786

Common Name

ARALYDRAFT_907786

Organism

Arabidopsis lyrata

Taxonomic ID

81972

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 369aa MW: 40847.1 Da PI: 5.6585

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
907786	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	22.5	2.1e-07	182	226	6	55
HHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 6 nerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 n Er+ R+++N+++ +L++llP++ + ++L +A++Y+k+Lq 907786 182 NSPERKQRRDVNKKMRTLQDLLPNS-----HEDDNESMLDEAINYMKNLQ 226 778*******************8.....4678889**********9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	3.93E-8	172	230	No hit	No description
Gene3D	G3DSA:4.10.280.10	3.0E-10	173	237	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	2.36E-12	174	245	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	12.639	176	225	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	3.8E-5	182	226	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.5E-5	182	231	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010017	Biological Process	red or far-red light signaling pathway
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 369 aa Download sequence Send to blast
MELVFENGQI LAKGQRSNVP LQNQRTKSIM DLYEAEYNED FMKSIIHGGG GGGANKNLGD 60 TQVVPQSHVV PAHETNMLES NKHVDDSTLI ETLKASSSKR MMVDYDNRKK IKFIPPDEQS 120 VVAKRMVESG FNTSSAGFTE DSEGSMYLSS SLDDESDDAR PQVPARTRKA LVKRKRNAEA 180 YNSPERKQRR DVNKKMRTLQ DLLPNSHEDD NESMLDEAIN YMKNLQLQVQ MMTMGNRFVT 240 PSMMLPLGLH YSQMDLAMGM GMQMGAQQFL PAHVLGAGLP GINDSADMLR FLNHPGLMQM 300 QNSAPFTPTE DCSPQSVPPS CAAFPNQIPN PTSLSNLDGA SPYTRNQGTL TDEGILPGKN 360 LETREQMK*

Sequence ? help Back to Top

Protein Sequence Length: 369 aa Download sequence Send to blast

MELVFENGQI LAKGQRSNVP LQNQRTKSIM DLYEAEYNED FMKSIIHGGG GGGANKNLGD  60
TQVVPQSHVV PAHETNMLES NKHVDDSTLI ETLKASSSKR MMVDYDNRKK IKFIPPDEQS  120
VVAKRMVESG FNTSSAGFTE DSEGSMYLSS SLDDESDDAR PQVPARTRKA LVKRKRNAEA  180
YNSPERKQRR DVNKKMRTLQ DLLPNSHEDD NESMLDEAIN YMKNLQLQVQ MMTMGNRFVT  240
PSMMLPLGLH YSQMDLAMGM GMQMGAQQFL PAHVLGAGLP GINDSADMLR FLNHPGLMQM  300
QNSAPFTPTE DCSPQSVPPS CAAFPNQIPN PTSLSNLDGA SPYTRNQGTL TDEGILPGKN  360
LETREQMK*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	907786

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	BT033108	0.0	BT033108.1 Arabidopsis thaliana unknown protein (At3g62090) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002876664.2	0.0	LOW QUALITY PROTEIN: transcription factor PIF6
Swissprot	Q8L5W7	0.0	PIF6_ARATH; Transcription factor PIF6
TrEMBL	D7LSU3	0.0	D7LSU3_ARALL; Uncharacterized protein
STRING	scaffold_503490.1	0.0	(Arabidopsis lyrata)

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
AT3G62090.1	0.0	phytochrome interacting factor 3-like 2

Link Out ? help Back to Top
Phytozome	907786
Entrez Gene	9314506

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]