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

348075

Common Name

ARALYDRAFT_348075

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: 312aa MW: 34373.7 Da PI: 4.842

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
348075	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	22	3e-07	144	181	13	55
HHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 13 RdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 R++iN+++ +L++llP++ K + ++L +A++Y+k+Lq 348075 144 RRDINKKMRTLQDLLPNS-----HKDDNESVLDEAINYMKNLQ 181 789************8.....69***************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50888	11.515	131	180	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.8E-4	139	186	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	8.90E-8	142	185	No hit	No description
Gene3D	G3DSA:4.10.280.10	3.6E-9	143	191	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	7.2E-11	143	203	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	9.5E-5	144	181	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: 312 aa Download sequence Send to blast
MDLYEAEYNE DFMKSIIHGG GGGANKNLGD TQVVPQSHVV PPHETDMLES NRHVDGSTLI 60 ETLKASSSKR MMIDYDNRMK IKFIPPDEQS VVAERMVESG FNTSSAGFTE DSEGSMYLSS 120 SLDDESDDAR PQVPARTRKA LKQRRDINKK MRTLQDLLPN SHKDDNESVL DEAINYMKNL 180 QLQVQMMTMG NTFVTPSMML PFMGMQMGAQ QFLPAHVLGA GLPGINDSAD MLRFLNHPGL 240 IQMQKSAPFT PTEDCSPQSV PPSCAAFPNH IPNSTSLSNL DGASPYTRNQ GTLTDEGILP 300 GKNLETREQM K*

Cis-element ? help Back to Top
Source	Link
PlantRegMap	348075

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	AL138651	1e-145	AL138651.1 Arabidopsis thaliana DNA chromosome 3, BAC clone T17J13.
GenBank	CP002686	1e-145	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.
GenBank	GQ477368	1e-145	GQ477368.1 Arabidopsis thaliana phytochrome interacting factor 6 splice variant (PIF6) mRNA, complete cds, alternatively spliced.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020881998.1	0.0	LOW QUALITY PROTEIN: transcription factor PIF6
Swissprot	Q8L5W7	1e-160	PIF6_ARATH; Transcription factor PIF6
TrEMBL	D7LSM3	0.0	D7LSM3_ARALL; Uncharacterized protein
STRING	fgenesh1_pg.C_scaffold_5001467	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	1e-149	phytochrome interacting factor 3-like 2

Link Out ? help Back to Top
Phytozome	348075
Entrez Gene	9312055

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]