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

KFK37457.1

Organism

Arabis alpina

Taxonomic ID

50452

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 406aa MW: 46206.8 Da PI: 8.4173

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KFK37457.1	genome	MPIPBR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	34.6	3.5e-11	229	275	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 h+ Er+RRd+iN+++ +L+ llP++ K +K++ L +A++Y + Lq KFK37457.1 229 VHKLSERKRRDEINKKMRTLQNLLPNC-----YKEDKVSLLDEAIKYTRTLQ 275 6999********************8.....5************99998 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.280.10	9.7E-17	222	285	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	2.27E-12	223	279	No hit	No description
SuperFamily	SSF47459	3.14E-17	223	300	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.339	225	274	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	1.0E-8	229	275	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	9.2E-11	231	280	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009641	Biological Process	shade avoidance
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: 406 aa Download sequence Send to blast
MEQKAFASSS SSSLQQNKIS PSSSFKPKLN DQEYMELVCE NGKILAKSGR PNNNDFLQNQ 60 RRQSLLDLYK TEYDESFKKN ITNLGDYSSQ VVPVSESQPQ QGDEQTDSYN KKTKIKSTKS 120 NKRFETSILV DDSLKGLKNV HEVITTPPDE QSVAVGRSTE LYFASSSMFS RGTSRDLSFC 180 SFKKIYGDLD EEESTYLSNN SDDESDDAKP QVPTRTRKMM TKRKRNTEVH KLSERKRRDE 240 INKKMRTLQN LLPNCYKEDK VSLLDEAIKY TRTLQLQVQM MSMGNGLVRP PMMFPMDHYS 300 LMNLGMHMGA SVPQFMPMNF QGTGFSEIND PTSQMLRYLN QPTGLVPNSP MFTPFESCSP 360 QFVRPSCDPQ TQATSFTQFP NSASTSNLED ATQFRGSNGY YHHSLK

Sequence ? help Back to Top

Protein Sequence Length: 406 aa Download sequence Send to blast

MEQKAFASSS SSSLQQNKIS PSSSFKPKLN DQEYMELVCE NGKILAKSGR PNNNDFLQNQ  60
RRQSLLDLYK TEYDESFKKN ITNLGDYSSQ VVPVSESQPQ QGDEQTDSYN KKTKIKSTKS  120
NKRFETSILV DDSLKGLKNV HEVITTPPDE QSVAVGRSTE LYFASSSMFS RGTSRDLSFC  180
SFKKIYGDLD EEESTYLSNN SDDESDDAKP QVPTRTRKMM TKRKRNTEVH KLSERKRRDE  240
INKKMRTLQN LLPNCYKEDK VSLLDEAIKY TRTLQLQVQM MSMGNGLVRP PMMFPMDHYS  300
LMNLGMHMGA SVPQFMPMNF QGTGFSEIND PTSQMLRYLN QPTGLVPNSP MFTPFESCSP  360
QFVRPSCDPQ TQATSFTQFP NSASTSNLED ATQFRGSNGY YHHSLK

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	222	237	RKRNTEVHKLSERKRR
2	233	238	ERKRRD

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor. Involved in responses to transient and long-term shade. Required for the light-mediated inhibition of hypocotyl elongation. Necessary for rapid light-induced expression of the photomorphogenesis- and circadian-related gene APRR9. Seems to play a role in multiple PHYB responses, such as flowering transition and petiole elongation. {ECO:0000269\|PubMed:14668869, ECO:0000269\|PubMed:16565297, ECO:0000269\|PubMed:16891401}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	KFK37457.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Expressed with a circadian rhythm showing peaks during the light period. Up-regulated by simulated shade in light-grown plants, in a phytochrome-dependent manner; low red/far-red ratio (R/FR) light, but repressed by a high R/FR light. Rapidly down-regulated after seedling deetiolation. {ECO:0000269\|PubMed:14668869, ECO:0000269\|PubMed:16565297, ECO:0000269\|PubMed:16891401}.

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_002882098.1	0.0	transcription factor PIL1
Swissprot	Q8L5W8	0.0	PIL1_ARATH; Transcription factor PIL1
TrEMBL	A0A087H5Q5	0.0	A0A087H5Q5_ARAAL; Uncharacterized protein
STRING	A0A087H5Q5	0.0	(Arabis alpina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13937	17	25

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G46970.1	1e-170	phytochrome interacting factor 3-like 1

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] Luo Q, et al. COP1 and phyB Physically Interact with PIL1 to Regulate Its Stability and Photomorphogenic Development in Arabidopsis. Plant Cell, 2014. 26(6): p. 2441-2456 [PMID:24951480] Kasulin L, et al. A single haplotype hyposensitive to light and requiring strong vernalization dominates Arabidopsis thaliana populations in Patagonia, Argentina. Mol. Ecol., 2017. 26(13): p. 3389-3404 [PMID:28316114]