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

Csa20g027300.1

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

SBP

Protein Properties

Length: 830aa MW: 92392.4 Da PI: 6.9507

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa20g027300.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	115.3	3.3e-36	152	228	1	77
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 +Cqv+gCe+d+se+k yhrrh+vC +++a+ v+++g ++r+CqqC++fh l +fDe+krsCrr+L++hn+rr++k Csa20g027300.1 152 RCQVPGCEVDISELKGYHRRHRVCLRCANATFVVLDGDNKRYCQQCGKFHVLPDFDEGKRSCRRKLERHNNRRKRKP 228 6************************************************************************9975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	2.3E-28	146	214	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	29.487	150	227	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	4.45E-34	151	231	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	3.5E-27	153	226	IPR004333	Transcription factor, SBP-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 830 aa Download sequence Send to blast
MSSLSQSQSP TPPEMEIQPP PALVNDDPST YPSALWDWGD LLDFAADERL LVSFDSSDHL 60 TPFPPVPSPP PLPPHPQPQL IPTQPLAESE SYPSPDESGS GSDRVRKRDP RLICSNFVEG 120 LLPCSCPELD QKLEEAELPK KKRVRGGSGV ARCQVPGCEV DISELKGYHR RHRVCLRCAN 180 ATFVVLDGDN KRYCQQCGKF HVLPDFDEGK RSCRRKLERH NNRRKRKPVD KGGVATKQQQ 240 VPPSHNDNSV IDVEDGKDNT CSSDQRPEQE ASLIFEDGHI PAQGSVPFTH SINADNFVSV 300 TGSGEPQPDE GMNDTKFELS PSGGDNKSAY STVCPTGRIS FKLYDWNPAE FPRRLRHQIF 360 QWLSTMPVEL EGYIRPGCTI LTVFIAMPEI MWAKLSKDPV AYLDEFILKP GKMLFGRGSM 420 TVYLNNMIFR LIKGKLMCST CGTSLKRVDV KLESPKLQFV YPTCFEAGKP IELVVCGQNL 480 LQPKCRFLVS FSGKYLPHNY SVVPTPAQDE KRSCNNKFYK INIVNSDPNL FGPAFVEVEN 540 ESGLSNFIPL IIGDESICSE MKQIEQKFNA TLVPEGQEVT ACCSSTCCCS DFGERQSAFS 600 GLLLDIAWSV KVPSAECTEK RINRCQIKRY NRVLNYLIQN NSSSILGNVL HNLEALVKKM 660 EPDSLVHCTC DCDVKLLHEN MNLASDANRK HQIHEESKVT PGNVLPSSGC CCKSSFQKDK 720 PSTIVNFNQD PEAGLDCKER IQADCSPDIG GKETDPLLNK EVVMNVKDIG DWPRKSCIPL 780 HSTLTYRSRQ TVFLIATFAV CFAVCAVLYH PNKVTQLAVA IRTRLAHKL*

Sequence ? help Back to Top

Protein Sequence Length: 830 aa Download sequence Send to blast

MSSLSQSQSP TPPEMEIQPP PALVNDDPST YPSALWDWGD LLDFAADERL LVSFDSSDHL  60
TPFPPVPSPP PLPPHPQPQL IPTQPLAESE SYPSPDESGS GSDRVRKRDP RLICSNFVEG  120
LLPCSCPELD QKLEEAELPK KKRVRGGSGV ARCQVPGCEV DISELKGYHR RHRVCLRCAN  180
ATFVVLDGDN KRYCQQCGKF HVLPDFDEGK RSCRRKLERH NNRRKRKPVD KGGVATKQQQ  240
VPPSHNDNSV IDVEDGKDNT CSSDQRPEQE ASLIFEDGHI PAQGSVPFTH SINADNFVSV  300
TGSGEPQPDE GMNDTKFELS PSGGDNKSAY STVCPTGRIS FKLYDWNPAE FPRRLRHQIF  360
QWLSTMPVEL EGYIRPGCTI LTVFIAMPEI MWAKLSKDPV AYLDEFILKP GKMLFGRGSM  420
TVYLNNMIFR LIKGKLMCST CGTSLKRVDV KLESPKLQFV YPTCFEAGKP IELVVCGQNL  480
LQPKCRFLVS FSGKYLPHNY SVVPTPAQDE KRSCNNKFYK INIVNSDPNL FGPAFVEVEN  540
ESGLSNFIPL IIGDESICSE MKQIEQKFNA TLVPEGQEVT ACCSSTCCCS DFGERQSAFS  600
GLLLDIAWSV KVPSAECTEK RINRCQIKRY NRVLNYLIQN NSSSILGNVL HNLEALVKKM  660
EPDSLVHCTC DCDVKLLHEN MNLASDANRK HQIHEESKVT PGNVLPSSGC CCKSSFQKDK  720
PSTIVNFNQD PEAGLDCKER IQADCSPDIG GKETDPLLNK EVVMNVKDIG DWPRKSCIPL  780
HSTLTYRSRQ TVFLIATFAV CFAVCAVLYH PNKVTQLAVA IRTRLAHKL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul5_A	1e-49	150	235	3	88	squamosa promoter binding protein-like 7
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that participates in reprogramming global gene expression during copper deficiency in order to improve the metal uptake and prioritize its distribution to copper proteins of major importance (Probable). Binds directly to 5'-GTAC-3' motifs in the microRNA (miRNA) promoter of the stress-responsive miRNAs miR398b and miR398c to activate their transcription. During copper deficiency, activates the copper transporters COPT1 and COPT2, and the copper chaperone CCH, directly or indirectly via miRNAs. Required for the expression of the miRNAs miR397, miR408 and miR857 (PubMed:19122104). Acts coordinately with HY5 to regulate miR408 and its target genes in response to changes in light and copper conditions (PubMed:25516599). Activates miR857 and its target genes in response to low copper conditions (PubMed:26511915). Involved in cadmium stress response by regulating miR397a, miR398b, miR398c and miR857 (PubMed:27352843). Required for iron homeostasis during copper deficiency (PubMed:22374396). {ECO:0000269\|PubMed:19122104, ECO:0000269\|PubMed:22374396, ECO:0000269\|PubMed:25516599, ECO:0000269\|PubMed:26511915, ECO:0000269\|PubMed:27352843}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Csa20g027300.1

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_010492921.1	0.0	PREDICTED: squamosa promoter-binding-like protein 7 isoform X2
Swissprot	Q8S9G8	0.0	SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBL	R0FIT6	0.0	R0FIT6_9BRAS; Uncharacterized protein
STRING	XP_010492920.1	0.0	(Camelina sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6358	26	44

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G18830.1	0.0	squamosa promoter binding protein-like 7

Publications ? help Back to Top
Zhang H, et al. MicroRNA408 is critical for the HY5-SPL7 gene network that mediates the coordinated response to light and copper. Plant Cell, 2014. 26(12): p. 4933-53 [PMID:25516599] Zhao Y, et al. MicroRNA857 Is Involved in the Regulation of Secondary Growth of Vascular Tissues in Arabidopsis. Plant Physiol., 2015. 169(4): p. 2539-52 [PMID:26511915] Perea-García A, et al. Modulation of copper deficiency responses by diurnal and circadian rhythms in Arabidopsis thaliana. J. Exp. Bot., 2016. 67(1): p. 391-403 [PMID:26516126] Gielen H,Remans T,Vangronsveld J,Cuypers A Toxicity responses of Cu and Cd: the involvement of miRNAs and the transcription factor SPL7. BMC Plant Biol., 2016. 16(1): p. 145 [PMID:27352843] Yan J, et al. Arabidopsis Pollen Fertility Requires the Transcription Factors CITF1 and SPL7 That Regulate Copper Delivery to Anthers and Jasmonic Acid Synthesis. Plant Cell, 2017. 29(12): p. 3012-3029 [PMID:29114014] Araki R, et al. SPL7 locally regulates copper-homeostasis-related genes in Arabidopsis. J. Plant Physiol., 2018. [PMID:29635212]