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

Thhalv10012721m

Common Name

EUTSA_v10012721mg

Organism

Eutrema salsugineum

Taxonomic ID

72664

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Eutremeae; Eutrema

Family

SBP

Protein Properties

Length: 804aa MW: 89833.6 Da PI: 7.0883

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thhalv10012721m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	117.2	8.2e-37	143	219	1	77
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 +Cqv+gCead+se+k yh+rh+vC +++a++v+++g+++r+CqqC++fh ls+fDe+krsCrr+L++hn+rr++k Thhalv10012721m 143 RCQVPGCEADISELKGYHKRHRVCLRCANASSVVLDGENKRYCQQCGKFHVLSDFDEGKRSCRRKLERHNNRRKRKP 219 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	4.8E-29	137	205	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	29.607	141	218	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	4.84E-34	142	222	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	1.5E-27	144	217	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: 804 aa Download sequence Send to blast
MSSMSQSPSA PEMEIQPPTL VNDDPSTYSS AMWDWGDLLD FTADDRLLVS FDSETPFSPV 60 PPPPPPPPPP MIATQPPVES ESYPSPDESG SGSDRVRKRD PRLICSNFLE GMLPCSCPEL 120 DQKLEEAELP KKKRVRGGSG VARCQVPGCE ADISELKGYH KRHRVCLRCA NASSVVLDGE 180 NKRYCQQCGK FHVLSDFDEG KRSCRRKLER HNNRRKRKPV DKGGVAPKQQ QVSSQNDNSV 240 IDVDDAKDNT YSSDQRAEQE ASMNFEDRHI PAQGSVPFTH SINADNFVSV TGSGEAQPEE 300 GINDTKFELS PSCGENKSAY STVCPTGRIS FKLYDWNPAE FPRRLRHQIF QWLATMPVEL 360 EGYIRPGCTI LTVFIAMPEI MWAKLSKDPV AYLDEFILKP GKMLFGRGSM TVYLNNMIFR 420 LMKGGTTLKR VDVKLESPKL QFVYPTCFEA GKPIELVVCG HNLLQPKCRF LVSFSGKYLP 480 HNYSVLPAPG QDGKRSCDNK FYKINIVNSD PNLFGPAFVE VENESGLSNF IPLIIGDKAI 540 CSEMKLIEQK FNATLFPEGQ GVTACCSLTC CCRDFEERQS TFTGLLLDIA WSVKMPSSEC 600 TEQTVNRCQI KRYNRVLNYL IQSNSASILG NVLHNLEKLV KKMDPDSLVH CTCDCDVRLL 660 HENMNVARKQ QSYEDSKLKP GISGCCCESS FQKDIPSRMF NYNQDPEAGL DCKERLQAAS 720 PDTGGKETDP LINKEVVMDV NDMGVWPRKS CIPIHKAKTF RSHQTVFLIA TFVVCFAVCA 780 VLYHPNKVTQ LAVAIRTRLA HNV*

Sequence ? help Back to Top

Protein Sequence Length: 804 aa Download sequence Send to blast

MSSMSQSPSA PEMEIQPPTL VNDDPSTYSS AMWDWGDLLD FTADDRLLVS FDSETPFSPV  60
PPPPPPPPPP MIATQPPVES ESYPSPDESG SGSDRVRKRD PRLICSNFLE GMLPCSCPEL  120
DQKLEEAELP KKKRVRGGSG VARCQVPGCE ADISELKGYH KRHRVCLRCA NASSVVLDGE  180
NKRYCQQCGK FHVLSDFDEG KRSCRRKLER HNNRRKRKPV DKGGVAPKQQ QVSSQNDNSV  240
IDVDDAKDNT YSSDQRAEQE ASMNFEDRHI PAQGSVPFTH SINADNFVSV TGSGEAQPEE  300
GINDTKFELS PSCGENKSAY STVCPTGRIS FKLYDWNPAE FPRRLRHQIF QWLATMPVEL  360
EGYIRPGCTI LTVFIAMPEI MWAKLSKDPV AYLDEFILKP GKMLFGRGSM TVYLNNMIFR  420
LMKGGTTLKR VDVKLESPKL QFVYPTCFEA GKPIELVVCG HNLLQPKCRF LVSFSGKYLP  480
HNYSVLPAPG QDGKRSCDNK FYKINIVNSD PNLFGPAFVE VENESGLSNF IPLIIGDKAI  540
CSEMKLIEQK FNATLFPEGQ GVTACCSLTC CCRDFEERQS TFTGLLLDIA WSVKMPSSEC  600
TEQTVNRCQI KRYNRVLNYL IQSNSASILG NVLHNLEKLV KKMDPDSLVH CTCDCDVRLL  660
HENMNVARKQ QSYEDSKLKP GISGCCCESS FQKDIPSRMF NYNQDPEAGL DCKERLQAAS  720
PDTGGKETDP LINKEVVMDV NDMGVWPRKS CIPIHKAKTF RSHQTVFLIA TFVVCFAVCA  780
VLYHPNKVTQ LAVAIRTRLA HNV*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul5_A	5e-49	141	226	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}.

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	Thhalv10012721m

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	AK353552	0.0	AK353552.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-52-E05.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006400438.1	0.0	squamosa promoter-binding-like protein 7
Swissprot	Q8S9G8	0.0	SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBL	E4MYF5	0.0	E4MYF5_EUTHA; mRNA, clone: RTFL01-52-E05
TrEMBL	V4N865	0.0	V4N865_EUTSA; Uncharacterized protein
STRING	XP_006400438.1	0.0	(Eutrema salsugineum)

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

Link Out ? help Back to Top
Phytozome	Thhalv10012721m
Entrez Gene	18016593

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]