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

Manes.15G019100.1.p

Organism

Manihot esculenta

Taxonomic ID

3983

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Crotonoideae; Manihoteae; Manihot

Family

SBP

Protein Properties

Length: 775aa MW: 87260.5 Da PI: 6.1416

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Manes.15G019100.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	114.8	4.8e-36	129	205	1	77
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 +Cqv+gCe+d+se+k yh+rh++C +++a++v+++g+++r+CqqC++fh ls+fDe+krsCrr+L++hn+rrr+k Manes.15G019100.1.p 129 RCQVPGCEVDISELKGYHKRHRICLCCANASAVVLDGENKRYCQQCGKFHLLSDFDEGKRSCRRKLERHNRRRRRKP 205 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	1.2E-27	123	191	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	29.752	127	204	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	3.92E-33	128	208	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	7.7E-27	130	204	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: 775 aa Download sequence Send to blast
MEPSSPISPG APRPNLDDME IHLPVPEDPS SSAIWDWGDL LDFTIDDHFP ISFDDADILT 60 DVVSQVDPIE ETPVPDRVRK RDPRSTCSNF LAGRVPCACP ELDEKLEEEE DVPGRKRVRT 120 SRSSTGVARC QVPGCEVDIS ELKGYHKRHR ICLCCANASA VVLDGENKRY CQQCGKFHLL 180 SDFDEGKRSC RRKLERHNRR RRRKPRDSTE VVDKDPQGEL LSEDAARDGA TEKDHQIVEK 240 ETLVESEDGK VSSPQSAPSS QNLNTDSGAS VGTPKDGGKD DSKFAYSPFN RENKSFYSSA 300 CPTGRISFKL YDWNPAEFPR RLRLQIFEWL ASMPVELEGY VRPGCTILTA FLSMPSFMWE 360 KLFQDPLSYV HDFVIVPGTL LSKRSPMLIY LNDMIFHVLK DGNSLLKANM EVQAPRLHYV 420 HPTCFEAGKP IEFVACGSNL LQPKFRLLVS FAGKYLAYDH CVALPHGHTE ECSRLDHQLC 480 KIFIPNVEPN LFGPAFIEVE NESGLSNFVP VLIGDREICS EMKIIQHRLG LSLLGSQCEV 540 AVHRQRAFSE LVVDIAWVLK KPSSESFHQS MSSSQIQRLN SLLSLLIHHE STAILDKILK 600 NLKSILEEME KDRVAYDMND SEMSLLQKYM DSASDICHQK VKKRDGLAIQ WECAVDESEF 660 RCSEIDMPSV APFMNEDLEK SSNSNRKTGE MLNSSAVDRV PLLSEELVMN VNLRKECPTR 720 SCSLSFSNRV LKSRPTVFLI ATFALCLGVC AILLHPNQVS KFAVSIRRCL TQRI*

Sequence ? help Back to Top

Protein Sequence Length: 775 aa Download sequence Send to blast

MEPSSPISPG APRPNLDDME IHLPVPEDPS SSAIWDWGDL LDFTIDDHFP ISFDDADILT  60
DVVSQVDPIE ETPVPDRVRK RDPRSTCSNF LAGRVPCACP ELDEKLEEEE DVPGRKRVRT  120
SRSSTGVARC QVPGCEVDIS ELKGYHKRHR ICLCCANASA VVLDGENKRY CQQCGKFHLL  180
SDFDEGKRSC RRKLERHNRR RRRKPRDSTE VVDKDPQGEL LSEDAARDGA TEKDHQIVEK  240
ETLVESEDGK VSSPQSAPSS QNLNTDSGAS VGTPKDGGKD DSKFAYSPFN RENKSFYSSA  300
CPTGRISFKL YDWNPAEFPR RLRLQIFEWL ASMPVELEGY VRPGCTILTA FLSMPSFMWE  360
KLFQDPLSYV HDFVIVPGTL LSKRSPMLIY LNDMIFHVLK DGNSLLKANM EVQAPRLHYV  420
HPTCFEAGKP IEFVACGSNL LQPKFRLLVS FAGKYLAYDH CVALPHGHTE ECSRLDHQLC  480
KIFIPNVEPN LFGPAFIEVE NESGLSNFVP VLIGDREICS EMKIIQHRLG LSLLGSQCEV  540
AVHRQRAFSE LVVDIAWVLK KPSSESFHQS MSSSQIQRLN SLLSLLIHHE STAILDKILK  600
NLKSILEEME KDRVAYDMND SEMSLLQKYM DSASDICHQK VKKRDGLAIQ WECAVDESEF  660
RCSEIDMPSV APFMNEDLEK SSNSNRKTGE MLNSSAVDRV PLLSEELVMN VNLRKECPTR  720
SCSLSFSNRV LKSRPTVFLI ATFALCLGVC AILLHPNQVS KFAVSIRRCL TQRI*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul5_A	5e-42	127	212	3	88	squamosa promoter binding protein-like 7
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	186	204	KRSCRRKLERHNRRRRRKP
2	190	202	RRKLERHNRRRRR
3	199	205	RRRRKPR

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	Manes.15G019100.1.p

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021594795.1	0.0	squamosa promoter-binding-like protein 7 isoform X3
Swissprot	Q8S9G8	0.0	SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBL	A0A2C9UCC0	0.0	A0A2C9UCC0_MANES; Uncharacterized protein
STRING	cassava4.1_002073m	0.0	(Manihot esculenta)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF6470	34	50

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	Manes.15G019100.1.p

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]