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

Csa13g021690.2

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: 816aa MW: 90843.5 Da PI: 6.7179

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa13g021690.2	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	115.2	3.6e-36	146	222	1	77
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 +Cqv+gCe+d+se+k yh+rh+vC +++a+ v+++g ++r+CqqC++fh l +fDe+krsCrr+L++hn+rr++k Csa13g021690.2 146 RCQVPGCEVDISELKGYHKRHRVCLRCANATFVVLDGDNKRYCQQCGKFHVLPDFDEGKRSCRRKLERHNNRRKRKP 222 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	6.4E-28	140	208	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	29.342	144	221	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	6.54E-34	145	225	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	4.8E-27	147	220	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: 816 aa Download sequence Send to blast
MSSLSQSQSP TPPEMEIQPP ALVTDDPSTY SSALWDWGDL LDFAADERLL VSFDSSDQLT 60 PFPPVPSPPQ PQLIPTHQPL AESESYPSPD ESGSGSDRVR KRDPRLICSN FVEGLLPCSC 120 PELDQKLEEA ELPKKKRVRG GSGVARCQVP GCEVDISELK GYHKRHRVCL RCANATFVVL 180 DGDNKRYCQQ CGKFHVLPDF DEGKRSCRRK LERHNNRRKR KPVDKGVVAT KQQQVPSQND 240 NSVIDVEDGK DNTCSSDQRA EQEASLIFED GHIPAQGSVP FTHSINADNF VSVTGSGEPQ 300 PDEGMNDTKF ELSPSGDDNK SAYSTVCPTG RISFKLYDWN PAEFPRRLRH QIFQWLSTMP 360 VELEGYIRPG CTILTVFIAM PEIMWAKLSK DPVAYLDEFI LKPGKMLFGR GSMTVYLNNM 420 IFRLIKGGTS LKRVDVKLES PKLQFVYPTC FEAGKPIELV VCGKNLLQPK CRFLVSFSGK 480 YLPHNYSVVP TPAQDGKRSC NNKFYKINIV NSDPNLFGPA FVEVENESGL SNFIPLIIGD 540 ESICSEMKQI EQKFNATLVP EGQEVTACCS SACCCSDFGE RQSAFSGLLL DIAWSVKVPS 600 AECTEKRINR CQIKRYNRVL NYLIQNNSSS ILGNVLHNLE ALVKKMEPDS LVHCTCDCDV 660 RLLHENMNLA IDANRKHQSH EDSKVNPGNV LPSSGCCCES SFQKDKPSKI VNFNQDPEAG 720 LDCKERIQAD CSPDIGGKET DPLLNKEVVM NVNDVGDWPR KSCIPLHSTL TFRSRQTVFL 780 IATFAVCFAV CAVLYHPNKV TQLAVAIRTR LAHKL*

Sequence ? help Back to Top

Protein Sequence Length: 816 aa Download sequence Send to blast

MSSLSQSQSP TPPEMEIQPP ALVTDDPSTY SSALWDWGDL LDFAADERLL VSFDSSDQLT  60
PFPPVPSPPQ PQLIPTHQPL AESESYPSPD ESGSGSDRVR KRDPRLICSN FVEGLLPCSC  120
PELDQKLEEA ELPKKKRVRG GSGVARCQVP GCEVDISELK GYHKRHRVCL RCANATFVVL  180
DGDNKRYCQQ CGKFHVLPDF DEGKRSCRRK LERHNNRRKR KPVDKGVVAT KQQQVPSQND  240
NSVIDVEDGK DNTCSSDQRA EQEASLIFED GHIPAQGSVP FTHSINADNF VSVTGSGEPQ  300
PDEGMNDTKF ELSPSGDDNK SAYSTVCPTG RISFKLYDWN PAEFPRRLRH QIFQWLSTMP  360
VELEGYIRPG CTILTVFIAM PEIMWAKLSK DPVAYLDEFI LKPGKMLFGR GSMTVYLNNM  420
IFRLIKGGTS LKRVDVKLES PKLQFVYPTC FEAGKPIELV VCGKNLLQPK CRFLVSFSGK  480
YLPHNYSVVP TPAQDGKRSC NNKFYKINIV NSDPNLFGPA FVEVENESGL SNFIPLIIGD  540
ESICSEMKQI EQKFNATLVP EGQEVTACCS SACCCSDFGE RQSAFSGLLL DIAWSVKVPS  600
AECTEKRINR CQIKRYNRVL NYLIQNNSSS ILGNVLHNLE ALVKKMEPDS LVHCTCDCDV  660
RLLHENMNLA IDANRKHQSH EDSKVNPGNV LPSSGCCCES SFQKDKPSKI VNFNQDPEAG  720
LDCKERIQAD CSPDIGGKET DPLLNKEVVM NVNDVGDWPR KSCIPLHSTL TFRSRQTVFL  780
IATFAVCFAV CAVLYHPNKV TQLAVAIRTR LAHKL*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul5_A	5e-49	144	229	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	Csa13g021690.2

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	AF367355	0.0	AF367355.1 Arabidopsis thaliana AT5g18830/F17K4_80 mRNA, complete cds.
GenBank	AJ011612	0.0	AJ011612.1 Arabidopsis thaliana (ecotype Columbia) mRNA for squamosa promoter binding protein-like 7.
GenBank	AY078050	0.0	AY078050.1 Arabidopsis thaliana AT5g18830/F17K4_80 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010454135.1	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_010454135.1	0.0	(Camelina sativa)

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]