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

Csa04g066110.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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

Family

bHLH

Protein Properties

Length: 420aa MW: 46979.7 Da PI: 9.3289

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa04g066110.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	38.1	2.7e-12	239	285	4	55
HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 h Er+RRd+ N+++ L++llP++ K +Ka+ L +A++Y++ Lq Csa04g066110.1 239 VHRLSERKRRDEFNKKMRALQDLLPNC-----YKDDKASLLDEAIKYMRTLQ 285 59999*******************8.....6****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
CDD	cd00083	6.26E-13	231	289	No hit	No description
Gene3D	G3DSA:4.10.280.10	1.7E-16	232	295	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamily	SSF47459	1.96E-17	233	310	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profile	PS50888	15.688	235	284	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	6.4E-10	239	285	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	1.7E-11	241	290	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: 420 aa Download sequence Send to blast
MEGKQLASSS SHQPNVISPS SGFKPKLKDQ DYMELVCENG KILAKTRRPK NNSSFQNQRT 60 QSLLDLYETE YYDDGFKRNI KNLGDTQVVP VSEPQPQQDK ENDEQINNNN NKKKITSSKT 120 ESERNVSKSH KRVESSTLID DSAKGPKDVE VITAPPDEQS AAVGRSTELY FASSSKFSRG 180 SSRDRSLSSL KRKHGDIEEE ESTYLISNNS DDESDDEKTQ VHVRTRKLVT KKRKRSTEVH 240 RLSERKRRDE FNKKMRALQD LLPNCYKDDK ASLLDEAIKY MRTLQLQVQM MSMGNGLIRP 300 PTMLPMGHYS HPVGLGMHMG AAAATQVPQF LPMNVHGAGF PGINNASSQM LSFLNHPTGL 360 IPNTPIFSPL ENCSQQLVVP SCLPQTQATS LTQFPKSAST SNLEDVMQFR GSNGYYTAR*

Sequence ? help Back to Top

Protein Sequence Length: 420 aa Download sequence Send to blast

MEGKQLASSS SHQPNVISPS SGFKPKLKDQ DYMELVCENG KILAKTRRPK NNSSFQNQRT  60
QSLLDLYETE YYDDGFKRNI KNLGDTQVVP VSEPQPQQDK ENDEQINNNN NKKKITSSKT  120
ESERNVSKSH KRVESSTLID DSAKGPKDVE VITAPPDEQS AAVGRSTELY FASSSKFSRG  180
SSRDRSLSSL KRKHGDIEEE ESTYLISNNS DDESDDEKTQ VHVRTRKLVT KKRKRSTEVH  240
RLSERKRRDE FNKKMRALQD LLPNCYKDDK ASLLDEAIKY MRTLQLQVQM MSMGNGLIRP  300
PTMLPMGHYS HPVGLGMHMG AAAATQVPQF LPMNVHGAGF PGINNASSQM LSFLNHPTGL  360
IPNTPIFSPL ENCSQQLVVP SCLPQTQATS LTQFPKSAST SNLEDVMQFR GSNGYYTAR*

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	230	235	KKRKRS
2	232	247	RKRSTEVHRLSERKRR
3	243	248	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	Csa04g066110.1

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AY954840	0.0	AY954840.1 Arabidopsis thaliana hypothetical protein (At2g46970) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010506718.1	0.0	PREDICTED: transcription factor PIL1-like
Swissprot	Q8L5W8	0.0	PIL1_ARATH; Transcription factor PIL1
TrEMBL	A0A178VNL3	0.0	A0A178VNL3_ARATH; PIL1
STRING	XP_010506718.1	0.0	(Camelina sativa)

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]