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

KFK26119.1

Common Name

SPL7

Organism

Arabis alpina

Taxonomic ID

50452

Taxonomic Lineage

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

Family

SBP

Protein Properties

Length: 801aa MW: 89371 Da PI: 6.9074

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
KFK26119.1	genome	MPIPBR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	117	1e-36	144	220	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++vl++g+++r+CqqC++fh ls+fDe+krsCrr+L++hn+rr++k KFK26119.1 144 RCQVPGCEADISELKGYHKRHRVCLQCANAKSVLLDGENKRYCQQCGKFHVLSDFDEGKRSCRRKLERHNNRRKRKP 220 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	6.2E-29	138	206	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	29.342	142	219	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.23E-33	143	223	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	1.1E-27	145	218	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: 801 aa Download sequence Send to blast
MSSTSQSPST PEMDFQPPAL LNDDPSTYSS ASALWDWGDL LDFAADDRLL VSLDSDQSPF 60 PPVDPLPPPS SLIATQPPAD SESYPSPEES GSGSDRVRKR DPRLICSNFV EGLLPCSCPE 120 LDQKLEEAEL PKKKRVRGGS GVARCQVPGC EADISELKGY HKRHRVCLQC ANAKSVLLDG 180 ENKRYCQQCG KFHVLSDFDE GKRSCRRKLE RHNNRRKRKP VDKGGVAAKQ QQMLSQNDTS 240 VVDVDDGKDN TCSSDQRVEQ EASLIFEDRH IPAHGSVPFT HSINADNFVS VTGSGEAQPD 300 EGMNDTKFEL SPSCGDNKSA YSTVCPTGRI SFKLYDWNPA EFPRRLRHQI FQWLATMPVE 360 LEGYIRPGCT ILTVFIAMPE IMWAKLSKDP VAYLDEFILK PGKMLFGKGS MTVYLNNMIF 420 RLIKGGTTLK RVDVKLESPK LQFVYPTCFE AGKPIELVVS GHNILQPKCR FLVSFSGKYL 480 PHNYSVVPSP GQDGKRSCIN KLYKINIVNS DPNLFGPAFV EVENESGLSN FIPLIIGDEA 540 ICSEMKLIEQ KFNATLFPEG QGVTACCSLT CCCRDFEERQ STFTGLLLDI AWSVKVPSSE 600 CTELTVNRCQ IKRYNRVLNY LIQSNSPSIL GNVLHNLETL VKKMEPDSLV HCTCDCDVRL 660 LHENMNLARK HEDSKVNPGT SGCCCESSFK KDRSSRILNF NQDPEAGLDC KERIQAASPD 720 SDVKETDPLL NKEVVMNVHD IGEWRRKSCI PIQSSPIVRS RQTIFLLTTF VVCFAVCAVL 780 YHPNKVTQLA VAIRMRLAHK L

Sequence ? help Back to Top

Protein Sequence Length: 801 aa Download sequence Send to blast

MSSTSQSPST PEMDFQPPAL LNDDPSTYSS ASALWDWGDL LDFAADDRLL VSLDSDQSPF  60
PPVDPLPPPS SLIATQPPAD SESYPSPEES GSGSDRVRKR DPRLICSNFV EGLLPCSCPE  120
LDQKLEEAEL PKKKRVRGGS GVARCQVPGC EADISELKGY HKRHRVCLQC ANAKSVLLDG  180
ENKRYCQQCG KFHVLSDFDE GKRSCRRKLE RHNNRRKRKP VDKGGVAAKQ QQMLSQNDTS  240
VVDVDDGKDN TCSSDQRVEQ EASLIFEDRH IPAHGSVPFT HSINADNFVS VTGSGEAQPD  300
EGMNDTKFEL SPSCGDNKSA YSTVCPTGRI SFKLYDWNPA EFPRRLRHQI FQWLATMPVE  360
LEGYIRPGCT ILTVFIAMPE IMWAKLSKDP VAYLDEFILK PGKMLFGKGS MTVYLNNMIF  420
RLIKGGTTLK RVDVKLESPK LQFVYPTCFE AGKPIELVVS GHNILQPKCR FLVSFSGKYL  480
PHNYSVVPSP GQDGKRSCIN KLYKINIVNS DPNLFGPAFV EVENESGLSN FIPLIIGDEA  540
ICSEMKLIEQ KFNATLFPEG QGVTACCSLT CCCRDFEERQ STFTGLLLDI AWSVKVPSSE  600
CTELTVNRCQ IKRYNRVLNY LIQSNSPSIL GNVLHNLETL VKKMEPDSLV HCTCDCDVRL  660
LHENMNLARK HEDSKVNPGT SGCCCESSFK KDRSSRILNF NQDPEAGLDC KERIQAASPD  720
SDVKETDPLL NKEVVMNVHD IGEWRRKSCI PIQSSPIVRS RQTIFLLTTF VVCFAVCAVL  780
YHPNKVTQLA VAIRMRLAHK L

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul5_A	2e-47	142	227	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	KFK26119.1

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	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	S4WZV0	0.0	S4WZV0_ARAAL; SQUAMOSA promoter binding protein-like protein 7
STRING	S4WZV0	0.0	(Arabis alpina)

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

Publications ? help Back to Top
Bergonzi S, et al. Mechanisms of age-dependent response to winter temperature in perennial flowering of Arabis alpina. Science, 2013. 340(6136): p. 1094-7 [PMID:23723236] 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]