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

676734824

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 409aa MW: 45982.5 Da PI: 8.2603

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676734824	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	36.5	8.4e-12	231	277	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 h+ Er+RR++i +++ L++llP++ K +K++ L +A++Y++ Lq 676734824 231 VHKLSERKRRNEISKKMRALQDLLPNC-----YKDDKVSLLDEAIKYMRTLQ 277 6999********************8.....6****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.280.10	1.8E-16	224	288	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	2.13E-12	225	281	No hit	No description
SuperFamily	SSF47459	4.19E-17	225	302	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.269	227	276	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	2.1E-9	231	277	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	8.8E-11	233	282	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: 409 aa Download sequence Send to blast
MGKNPRASSS SKPNMISPSS SFKPTLNDQD YMELVCENGQ IFAKSRRCNN NGSFQNKRTQ 60 SILDLYEAEY DESFKKNIKN LGDTQVVPVS ETQQPQQDEK ETNNKKRIKS SKIEFERDVL 120 KGNKRFESST LNDDSSKGLK NVEVITTPPD EQSAAVGIST ELYFAPSSMF SRGTSRDLSC 180 CSFKRKEYED IEEEESTYLS NNSDDESDGA KTRVPAKTRT SIAKRKRSTE VHKLSERKRR 240 NEISKKMRAL QDLLPNCYKD DKVSLLDEAI KYMRTLQLQV QMMNMRNGLI QPSTMFPMGH 300 YSPMGLGMHM STAAPTTSVP QFLPMNFQGT SFPGINHASP QMLSSFVNHP TGLIQNSPIF 360 SPLESCSQQF VVPSCFPETT HATSFTQFPK SASTADQEDA IQFRGSNGY

Sequence ? help Back to Top

Protein Sequence Length: 409 aa Download sequence Send to blast

MGKNPRASSS SKPNMISPSS SFKPTLNDQD YMELVCENGQ IFAKSRRCNN NGSFQNKRTQ  60
SILDLYEAEY DESFKKNIKN LGDTQVVPVS ETQQPQQDEK ETNNKKRIKS SKIEFERDVL  120
KGNKRFESST LNDDSSKGLK NVEVITTPPD EQSAAVGIST ELYFAPSSMF SRGTSRDLSC  180
CSFKRKEYED IEEEESTYLS NNSDDESDGA KTRVPAKTRT SIAKRKRSTE VHKLSERKRR  240
NEISKKMRAL QDLLPNCYKD DKVSLLDEAI KYMRTLQLQV QMMNMRNGLI QPSTMFPMGH  300
YSPMGLGMHM STAAPTTSVP QFLPMNFQGT SFPGINHASP QMLSSFVNHP TGLIQNSPIF  360
SPLESCSQQF VVPSCFPETT HATSFTQFPK SASTADQEDA IQFRGSNGY

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	224	239	RKRSTEVHKLSERKRR

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	676734824

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	D7LFX4	0.0	D7LFX4_ARALL; Uncharacterized protein
STRING	scaffold_403670.1	0.0	(Arabidopsis lyrata)

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	0.0	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]