PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

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

Family

SBP

Protein Properties

Length: 764aa MW: 85214.4 Da PI: 7.2656

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC372_p2	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	109.8	1.7e-34	144	217	4	77
STT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS SBP 4 vegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 v +C++d+se+k yhrrh+vC ++++a++v+++g+ +r+CqqC++fh l +fDe+krsCrr+L++hn+rr++k RrC372_p2 144 VARCQVDISELKGYHRRHRVCLQCANATSVVLEGEDKRYCQQCGKFHVLPDFDEGKRSCRRKLERHNNRRKRKP 217 889*******************************************************************9975 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51141	26.538	139	216	IPR004333	Transcription factor, SBP-box
Gene3D	G3DSA:4.10.1100.10	8.5E-25	144	203	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	2.7E-25	144	215	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.31E-30	144	219	IPR004333	Transcription factor, SBP-box

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 764 aa Download sequence Send to blast
MSSLSQSQSQ SQSPPEMQIQ PPALLDDDDP SSSAMWDWGD LLLDFAADER LLVSLDSDQP 60 PFSPAPPPMI ATSQPPAQSE SYPSPDESVS GSGSDRVRKR DPRLLCSNFV EGLLPCSCPE 120 LDQKLEEAEL PKKKRVRGGG VSGVARCQVD ISELKGYHRR HRVCLQCANA TSVVLEGEDK 180 RYCQQCGKFH VLPDFDEGKR SCRRKLERHN NRRKRKPVDK GGGVASKQHQ NDNSVIDVDD 240 GKADNGCSSD QRVEQEASLN FEDRRIPTQG SVPFTHTINA DSFMKELMTQ SLNVHLPVVT 300 TKVLTQLCAP QVGSLSNSTI GIQPSSRGDY IFQWLATMPV ELEGYIRPGC TILTVFIAMP 360 EIMWAKQLSK DPVAYLDEFI LKPGKMLFGR GSMTVYLNNM IFRGTTLRRV DVKLESPKLQ 420 FVYPTCFEAG KPIELVVCGL NLVQPKCRYY LPHNYSVVPS RGQDGKRSCN NKLYRINIVN 480 SDPNLFGPAF VEVENESGLS NFIPLIIGDK AICSEMKVIE QKFNATLFPE EQGITACCSL 540 TCCCRDFKER QSTFTGLLLD IAWSVKVPST ECTEQPVNRC QIKRYNRVLN YLIQSNSPSI 600 LGNVLHNLET LVKKMKPDSL VHCTCDCDVR LLHENMNTAR KQQSHVDSKV NPVTSVCCCD 660 SSFQKDIPSR VLNFNQVPET GLGCDERIRA ASPDTGRKET DLLLNNEVIM NVNDIGDWPR 720 KSCIPIQSAQ TFRSRQTVLF IATIAVCFAV CAVLYHPNKV TQLA

Sequence ? help Back to Top

Protein Sequence Length: 764 aa Download sequence Send to blast

MSSLSQSQSQ SQSPPEMQIQ PPALLDDDDP SSSAMWDWGD LLLDFAADER LLVSLDSDQP  60
PFSPAPPPMI ATSQPPAQSE SYPSPDESVS GSGSDRVRKR DPRLLCSNFV EGLLPCSCPE  120
LDQKLEEAEL PKKKRVRGGG VSGVARCQVD ISELKGYHRR HRVCLQCANA TSVVLEGEDK  180
RYCQQCGKFH VLPDFDEGKR SCRRKLERHN NRRKRKPVDK GGGVASKQHQ NDNSVIDVDD  240
GKADNGCSSD QRVEQEASLN FEDRRIPTQG SVPFTHTINA DSFMKELMTQ SLNVHLPVVT  300
TKVLTQLCAP QVGSLSNSTI GIQPSSRGDY IFQWLATMPV ELEGYIRPGC TILTVFIAMP  360
EIMWAKQLSK DPVAYLDEFI LKPGKMLFGR GSMTVYLNNM IFRGTTLRRV DVKLESPKLQ  420
FVYPTCFEAG KPIELVVCGL NLVQPKCRYY LPHNYSVVPS RGQDGKRSCN NKLYRINIVN  480
SDPNLFGPAF VEVENESGLS NFIPLIIGDK AICSEMKVIE QKFNATLFPE EQGITACCSL  540
TCCCRDFKER QSTFTGLLLD IAWSVKVPST ECTEQPVNRC QIKRYNRVLN YLIQSNSPSI  600
LGNVLHNLET LVKKMKPDSL VHCTCDCDVR LLHENMNTAR KQQSHVDSKV NPVTSVCCCD  660
SSFQKDIPSR VLNFNQVPET GLGCDERIRA ASPDTGRKET DLLLNNEVIM NVNDIGDWPR  720
KSCIPIQSAQ TFRSRQTVLF IATIAVCFAV CAVLYHPNKV TQLA

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul5_A	1e-41	144	222	3	86	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}.

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	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_018446607.1	0.0	PREDICTED: squamosa promoter-binding-like protein 7 isoform X1
Swissprot	Q8S9G8	0.0	SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBL	A0A3N6PYF5	0.0	A0A3N6PYF5_BRACR; Uncharacterized protein
STRING	Bo9g154530.1	0.0	(Brassica oleracea)

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
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]