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

GSVIVT01017835001

Common Name

LOC100251222, VIT_05s0020g02160

Organism

Vitis vinifera

Taxonomic ID

29760

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis

Family

SBP

Protein Properties

Length: 693aa MW: 77300.6 Da PI: 7.8845

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSVIVT01017835001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	118.3	3.7e-37	24	99	1	76
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkk 76 +Cqv gCead+se+k yhrrh+vC +++a+vv+++g+++r+CqqC++fh ls+fDe+krsCrr+L++hn+rrr+k GSVIVT01017835001 24 RCQVTGCEADISELKGYHRRHRVCLRCANASVVILDGQNKRYCQQCGKFHILSDFDEGKRSCRRKLERHNNRRRRK 99 6************************************************************************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	7.0E-29	20	86	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	29.786	22	99	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.57E-34	23	103	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	7.1E-28	25	99	IPR004333	Transcription factor, SBP-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0055070	Biological Process	copper ion homeostasis
GO:0005634	Cellular Component	nucleus
GO:0016021	Cellular Component	integral component of membrane
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 693 aa Download sequence Send to blast
MILEESAPGK KRVRTARPAA GRARCQVTGC EADISELKGY HRRHRVCLRC ANASVVILDG 60 QNKRYCQQCG KFHILSDFDE GKRSCRRKLE RHNNRRRRKP IDSGGTVEKE IQGELISEDA 120 AHDGEADKDS LCLSSQLIER EPLLESEDGH FSTLCSVPGS QNIQSDGIVS FVGSGEAQID 180 GGKNDSKYTL SSSYCDNKSA YSSPCPTGRI SFKLYDWNPA EFPRRLRHQI FQWLASMPIE 240 LEGYIRPGCI ILTIFIAMPK FMWDKLLEDP ASYVHDFVAA PGKMLSGRGN VLVYLNNMIF 300 RVTEDGTSVM KVEVKMQAPK LHYVHPNCFE AGKPMEFVAC GSNLLRPKFR FLVSFAGKYL 360 SYDYHVVFPR GKIEGDTAGS LDHEFCKIYI PHTEPNAFGP AFIEVENDHG LSNFIPIFIG 420 DKEICSEMKI LQHRFDASLC SKGSQFFAKD PSDSCKVSVL GQTAFSEFIL DIAWILKEPA 480 SENIQRSLTS SHIQRFNCLL NFLIHNESTT ILEKILQSLK ILIDNMDLNI QVNGATDTDL 540 RLLYKYMDHA SKILHQKLHS SGGLVLHSGN SVTKGDHPSC FHNNMLPVVF PPEDTKISAN 600 GGLAAMASST STDRSETVSL LNREVVMNMN SIKEQPRKSC SLIFSKKAMT SRPFLYMIVA 660 AAACFGICAV LLHPHEVGKL AVSIRRCLFD NS*

Sequence ? help Back to Top

Protein Sequence Length: 693 aa Download sequence Send to blast

MILEESAPGK KRVRTARPAA GRARCQVTGC EADISELKGY HRRHRVCLRC ANASVVILDG  60
QNKRYCQQCG KFHILSDFDE GKRSCRRKLE RHNNRRRRKP IDSGGTVEKE IQGELISEDA  120
AHDGEADKDS LCLSSQLIER EPLLESEDGH FSTLCSVPGS QNIQSDGIVS FVGSGEAQID  180
GGKNDSKYTL SSSYCDNKSA YSSPCPTGRI SFKLYDWNPA EFPRRLRHQI FQWLASMPIE  240
LEGYIRPGCI ILTIFIAMPK FMWDKLLEDP ASYVHDFVAA PGKMLSGRGN VLVYLNNMIF  300
RVTEDGTSVM KVEVKMQAPK LHYVHPNCFE AGKPMEFVAC GSNLLRPKFR FLVSFAGKYL  360
SYDYHVVFPR GKIEGDTAGS LDHEFCKIYI PHTEPNAFGP AFIEVENDHG LSNFIPIFIG  420
DKEICSEMKI LQHRFDASLC SKGSQFFAKD PSDSCKVSVL GQTAFSEFIL DIAWILKEPA  480
SENIQRSLTS SHIQRFNCLL NFLIHNESTT ILEKILQSLK ILIDNMDLNI QVNGATDTDL  540
RLLYKYMDHA SKILHQKLHS SGGLVLHSGN SVTKGDHPSC FHNNMLPVVF PPEDTKISAN  600
GGLAAMASST STDRSETVSL LNREVVMNMN SIKEQPRKSC SLIFSKKAMT SRPFLYMIVA  660
AAACFGICAV LLHPHEVGKL AVSIRRCLFD NS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul5_A	6e-45	23	107	4	88	squamosa promoter binding protein-like 7
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	85	97	RRKLERHNNRRRR

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Vvi.8271	0.0	bud\| flower\| fruit

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed constitutively during plant development. {ECO:0000269\|PubMed:10524240}.
Uniprot	TISSUE SPECIFICITY: Expressed in roots rosette leaves, cauline leaves, stems, flowers and siliques. {ECO:0000269\|PubMed:24335506}.

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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00604	PBM	Transfer from AT5G18830	Download

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AM471679	0.0	AM471679.2 Vitis vinifera contig VV78X104105.11, whole genome shotgun sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002277039.1	0.0	PREDICTED: squamosa promoter-binding-like protein 7
Swissprot	Q8S9G8	0.0	SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBL	F6HDJ0	0.0	F6HDJ0_VITVI; Uncharacterized protein
STRING	VIT_05s0020g02160.t01	0.0	(Vitis vinifera)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Representative plant	OGRP4828	13	20

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G18830.3	0.0	squamosa promoter binding protein-like 7

Link Out ? help Back to Top
Phytozome	GSVIVT01017835001
Entrez Gene	100251222

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]