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.008G197000.1

Common Name

POPTR_0008s20160g

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: 794aa MW: 88909.6 Da PI: 6.8655

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.008G197000.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	115.8	2.3e-36	132	208	1	77
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 +Cqv+gCe+d+se+k yhrrhkvC ++ a++v+++++++r+CqqC++fh ls+fDe+krsCrr+L++hn+rrr+k Potri.008G197000.1 132 RCQVPGCETDISELKGYHRRHKVCLRCATATAVVLDEQTKRYCQQCGKFHVLSDFDEGKRSCRRKLERHNNRRRRKP 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	6.5E-28	126	194	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	28.992	130	207	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	4.32E-33	131	210	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	1.2E-26	133	207	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: 794 aa Download sequence Send to blast
METSSPSPPP PPSASQHGGD MEIHYPPITT DWDWSDLLDF AVDDRIPLSF DTPGDLTQTI 60 DNPTPEIESQ QVQLPVPDRV RKRDPRLTCS NFLAGIVPCA CPEVDELLRE EEATLPGKKR 120 VRVARAGSSI ARCQVPGCET DISELKGYHR RHKVCLRCAT ATAVVLDEQT KRYCQQCGKF 180 HVLSDFDEGK RSCRRKLERH NNRRRRKPAD SSKASAGDKE VQGDLLTEDT TTCDAEAEKD 240 GCSSGQMAEK EGLVESEDGH VSTMNSDPNS QNVTSDSGVS FTAFGDVLMD GGKDDSKFLF 300 SPSHCDNKSD YASMCPTGRI SFKLYDWNPA EFPRRLRHQI FQWLANMPVE LEGYIRPGCT 360 ILTAFIAMPT FMWVKLVEDP VSYLNDLFGS GKMLSKKGRM RVYVNNMIFN VTKDGNSVMK 420 VNVEGHAPRL HYVHPTCFEV GKPIEFVVCG SNLLQPKFQF LVSFAGKYLA HDYCVALPQA 480 HTKGGPGLHH QLYKILTHCN EPNLLGPAFI EVENESGLSN YIPILIGDTE ICSEMKIIQQ 540 RFDASHSLII GSECEVSTMR QTALSEFIMD IAWLLKEPSA ENSQQMMTSF QIQRINSLLN 600 FLLHHESIII LDKILKNLKI MMDKKEANGM VNGTSDTNMR LLQSYMDYAS NIRHEKLQRS 660 EVLKHHLEFS GKENNCISGS CCGNNKESVA LSTENLEQRP NGVLGVMGNS NFTVRSDEFP 720 LLTKDVVMRM NLVNERPKKS CGLVFSNRVL KYRPSFYVIA LIAVCFGVCA IVLHPHKVSK 780 LAVSIRRCLT ERF*

Sequence ? help Back to Top

Protein Sequence Length: 794 aa Download sequence Send to blast

METSSPSPPP PPSASQHGGD MEIHYPPITT DWDWSDLLDF AVDDRIPLSF DTPGDLTQTI  60
DNPTPEIESQ QVQLPVPDRV RKRDPRLTCS NFLAGIVPCA CPEVDELLRE EEATLPGKKR  120
VRVARAGSSI ARCQVPGCET DISELKGYHR RHKVCLRCAT ATAVVLDEQT KRYCQQCGKF  180
HVLSDFDEGK RSCRRKLERH NNRRRRKPAD SSKASAGDKE VQGDLLTEDT TTCDAEAEKD  240
GCSSGQMAEK EGLVESEDGH VSTMNSDPNS QNVTSDSGVS FTAFGDVLMD GGKDDSKFLF  300
SPSHCDNKSD YASMCPTGRI SFKLYDWNPA EFPRRLRHQI FQWLANMPVE LEGYIRPGCT  360
ILTAFIAMPT FMWVKLVEDP VSYLNDLFGS GKMLSKKGRM RVYVNNMIFN VTKDGNSVMK  420
VNVEGHAPRL HYVHPTCFEV GKPIEFVVCG SNLLQPKFQF LVSFAGKYLA HDYCVALPQA  480
HTKGGPGLHH QLYKILTHCN EPNLLGPAFI EVENESGLSN YIPILIGDTE ICSEMKIIQQ  540
RFDASHSLII GSECEVSTMR QTALSEFIMD IAWLLKEPSA ENSQQMMTSF QIQRINSLLN  600
FLLHHESIII LDKILKNLKI MMDKKEANGM VNGTSDTNMR LLQSYMDYAS NIRHEKLQRS  660
EVLKHHLEFS GKENNCISGS CCGNNKESVA LSTENLEQRP NGVLGVMGNS NFTVRSDEFP  720
LLTKDVVMRM NLVNERPKKS CGLVFSNRVL KYRPSFYVIA LIAVCFGVCA IVLHPHKVSK  780
LAVSIRRCLT ERF*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul5_A	4e-42	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}.

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Potri.008G197000.1

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	CT029897	0.0	CT029897.1 Poplar cDNA sequences.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002311811.1	0.0	squamosa promoter-binding-like protein 7
Swissprot	Q8S9G8	0.0	SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBL	B9HM86	0.0	B9HM86_POPTR; Uncharacterized protein
STRING	POPTR_0008s20160.1	0.0	(Populus trichocarpa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF6470	34	50
Representative plant	OGRP4828	13	20

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.008G197000.1
Entrez Gene	7473261

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]