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

Potri.010G026200.2

Common Name

POPTR_0010s02710g

Organism

Populus trichocarpa

Taxonomic ID

3694

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

SBP

Protein Properties

Length: 739aa MW: 82984.1 Da PI: 7.1514

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.010G026200.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	117.8	5.5e-37	132	208	1	77
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 +Cqv++Cead+se+k yhrrh+vC +++a++v+++g+++r+CqqC++fh ls+fDe+krsCrr+L++hn+rrr+k Potri.010G026200.2 132 RCQVPSCEADISELKGYHRRHRVCLGCANATAVVLDGETKRYCQQCGKFHVLSDFDEGKRSCRRKLERHNNRRRRKP 208 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	2.0E-28	126	194	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	29.368	130	207	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.23E-33	131	210	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	3.0E-27	133	207	IPR004333	Transcription factor, SBP-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
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: 739 aa Download sequence Send to blast
METSSSSSPP PPPPPQHDGD MEIHLPPVTT EWDWGDLLDF TVDDQFPLSF DTVVDVTQPI 60 DNPTPEVESQ QLEAPVSDRV RKRDPRLTCS NFLAGIVPCA CPEMDELLLE EEAALPGKKR 120 VRVARAGSSI ARCQVPSCEA DISELKGYHR RHRVCLGCAN ATAVVLDGET KRYCQQCGKF 180 HVLSDFDEGK RSCRRKLERH NNRRRRKPAD SSKGSADGLW SSSQMVEKEG LVESEDGHIS 240 ALNSDPISQN VNSDSGVSFT ASGDTRMDCG KDDSKLPFSP SICDNKSAYS SVCPTGRISF 300 KLYDWNPAEF PRRLRHQIFQ WLASMPVELE GYIRPGCTIL TAFLAMPTFM WVKLLEDPAS 360 YLNDLLGSGK MLSKKGRMRV YLNNMIFNVT KDGHSVMKVN VKGHAPRLHY VHPTCFEAGK 420 PMEFVVCGSN LLQPKFRFLV SFAGKYLAHD YCVALPQVHT KGGSGLHHQL YKILTHCIEP 480 NLLGPLFIEV ENESGLSNFI PVLIGDRDVC FEMKIIQQRF DVSHSLIFGS ECEVSAMRQT 540 AFSEFSTDIA WLLKEPSAEN FQQTITSFQI RRFNSLLSFL LHHESIIILD RILKNLEIMM 600 DKREVNGMFD DTSDTNMRLL QSYMEYASNI LHKKKRSEVL KHHLECPGQE YCVSGSCCGL 660 EQRPDGGLGV MANSKCIVKS EEVPLFNRDE RPKKSCGLVF SNRVLKYRPS VFVIAIIAVC 720 FAVSKLAVSI RRCLTDRY*

Sequence ? help Back to Top

Protein Sequence Length: 739 aa Download sequence Send to blast

METSSSSSPP PPPPPQHDGD MEIHLPPVTT EWDWGDLLDF TVDDQFPLSF DTVVDVTQPI  60
DNPTPEVESQ QLEAPVSDRV RKRDPRLTCS NFLAGIVPCA CPEMDELLLE EEAALPGKKR  120
VRVARAGSSI ARCQVPSCEA DISELKGYHR RHRVCLGCAN ATAVVLDGET KRYCQQCGKF  180
HVLSDFDEGK RSCRRKLERH NNRRRRKPAD SSKGSADGLW SSSQMVEKEG LVESEDGHIS  240
ALNSDPISQN VNSDSGVSFT ASGDTRMDCG KDDSKLPFSP SICDNKSAYS SVCPTGRISF  300
KLYDWNPAEF PRRLRHQIFQ WLASMPVELE GYIRPGCTIL TAFLAMPTFM WVKLLEDPAS  360
YLNDLLGSGK MLSKKGRMRV YLNNMIFNVT KDGHSVMKVN VKGHAPRLHY VHPTCFEAGK  420
PMEFVVCGSN LLQPKFRFLV SFAGKYLAHD YCVALPQVHT KGGSGLHHQL YKILTHCIEP  480
NLLGPLFIEV ENESGLSNFI PVLIGDRDVC FEMKIIQQRF DVSHSLIFGS ECEVSAMRQT  540
AFSEFSTDIA WLLKEPSAEN FQQTITSFQI RRFNSLLSFL LHHESIIILD RILKNLEIMM  600
DKREVNGMFD DTSDTNMRLL QSYMEYASNI LHKKKRSEVL KHHLECPGQE YCVSGSCCGL  660
EQRPDGGLGV MANSKCIVKS EEVPLFNRDE RPKKSCGLVF SNRVLKYRPS VFVIAIIAVC  720
FAVSKLAVSI RRCLTDRY*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul5_A	6e-43	128	212	1	85	squamosa promoter binding protein-like 7
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	193	205	RRKLERHNNRRRR

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Potri.010G026200.2

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	CT029897	1e-170	CT029897.1 Poplar cDNA sequences.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024466516.1	0.0	squamosa promoter-binding-like protein 7 isoform X2
Swissprot	Q8S9G8	0.0	SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBL	A0A2K1YMU5	0.0	A0A2K1YMU5_POPTR; Uncharacterized protein
STRING	POPTR_0010s02710.1	0.0	(Populus trichocarpa)

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

Link Out ? help Back to Top
Phytozome	Potri.010G026200.2
Entrez Gene	7475943

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]