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

Jcr4S02245.80

Common Name

JCGZ_02046, LOC105631854

Organism

Jatropha curcas

Taxonomic ID

180498

Taxonomic Lineage

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

Family

SBP

Protein Properties

Length: 784aa MW: 88005.7 Da PI: 6.5798

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Jcr4S02245.80	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	117.6	6.1e-37	133	210	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +Cqv+gCead+se+k yh+rh+vC +++a++v+++g+++r+CqqC++fh ls+fDe+krsCrr+L++hn rrr+k++ Jcr4S02245.80 133 RCQVPGCEADISELKGYHKRHRVCLRCANASAVILDGENKRYCQQCGKFHLLSDFDEGKRSCRRKLERHNTRRRRKSQ 210 6*************************************************************************9986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	8.0E-29	127	195	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	29.821	131	208	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	6.15E-34	132	211	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	1.2E-27	134	208	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: 784 aa Download sequence Send to blast
LTRLMESPLP PSPDAQQSNL DEMEIHSPVV DDPSSSTLWD WGDLLDFTVD DQFPISFDSI 60 DIPTTVPTQV NDIETTQVPD RVRKRDPRLT CSNFLAGRIP CACPEMDEKL EEEEGIPGKK 120 RVRTTRSNSG IARCQVPGCE ADISELKGYH KRHRVCLRCA NASAVILDGE NKRYCQQCGK 180 FHLLSDFDEG KRSCRRKLER HNTRRRRKSQ DPKGAVYGEP QGELHNEDIA CDDEEAGKDC 240 QVVEKEALVE SVDGNISTLR SAPNSQNLNS DSGVSVGTPK DGGKDDDSKI SLSPSNCDNK 300 SFYSSVCPTG RISFKLYDWN PAEFPRRLRL QIFEWLANMP VELEGYIRPG CTILTAFLAM 360 PTFMWAKLFE DPLSYLHDFV IMPGKMLSKR SPMLIYMNNM IFHVMKDENS VMKVNMEGQA 420 PRLHYVHPIC FEAGKPIEFV ACGSNMLQPK FRLLVSFAGK YLAYDYCVAL PHCHTEGCSS 480 SDHQLCKICI SHIEPNVFGP AFIEVENQSG LSNFIPVIIG DEKICSEIKV MQQRFDASHP 540 SNGSQCVVSE QRQMVFSEFI LDIAWLLKKP SAESFLQFRS SSQIQRLHSL LNFLLHHELT 600 AILDKVSQNL KIILDKIEIS RVVYGISDSD MELLQKYMDW ANNMLLKKAK KSDGLAFQWA 660 CTVEEGGSQR FSRSDVHSAA PFNSEDLESS SDGKSGVMEN SSAVVRSEKV PLLSKEVVMD 720 VNVIRGRPNK SCSLTLSNRI IKPRLTVFLI ATVAVCLGVC AILLHPKQVS KLAVSIRRCL 780 TEKL

Sequence ? help Back to Top

Protein Sequence Length: 784 aa Download sequence Send to blast

LTRLMESPLP PSPDAQQSNL DEMEIHSPVV DDPSSSTLWD WGDLLDFTVD DQFPISFDSI  60
DIPTTVPTQV NDIETTQVPD RVRKRDPRLT CSNFLAGRIP CACPEMDEKL EEEEGIPGKK  120
RVRTTRSNSG IARCQVPGCE ADISELKGYH KRHRVCLRCA NASAVILDGE NKRYCQQCGK  180
FHLLSDFDEG KRSCRRKLER HNTRRRRKSQ DPKGAVYGEP QGELHNEDIA CDDEEAGKDC  240
QVVEKEALVE SVDGNISTLR SAPNSQNLNS DSGVSVGTPK DGGKDDDSKI SLSPSNCDNK  300
SFYSSVCPTG RISFKLYDWN PAEFPRRLRL QIFEWLANMP VELEGYIRPG CTILTAFLAM  360
PTFMWAKLFE DPLSYLHDFV IMPGKMLSKR SPMLIYMNNM IFHVMKDENS VMKVNMEGQA  420
PRLHYVHPIC FEAGKPIEFV ACGSNMLQPK FRLLVSFAGK YLAYDYCVAL PHCHTEGCSS  480
SDHQLCKICI SHIEPNVFGP AFIEVENQSG LSNFIPVIIG DEKICSEIKV MQQRFDASHP  540
SNGSQCVVSE QRQMVFSEFI LDIAWLLKKP SAESFLQFRS SSQIQRLHSL LNFLLHHELT  600
AILDKVSQNL KIILDKIEIS RVVYGISDSD MELLQKYMDW ANNMLLKKAK KSDGLAFQWA  660
CTVEEGGSQR FSRSDVHSAA PFNSEDLESS SDGKSGVMEN SSAVVRSEKV PLLSKEVVMD  720
VNVIRGRPNK SCSLTLSNRI IKPRLTVFLI ATVAVCLGVC AILLHPKQVS KLAVSIRRCL  780
TEKL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul5_A	2e-45	131	214	3	86	squamosa promoter binding protein-like 7
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	194	206	RRKLERHNTRRRR

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

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012069441.1	0.0	squamosa promoter-binding-like protein 7 isoform X1
Swissprot	Q8S9G8	0.0	SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBL	A0A067KYI1	0.0	A0A067KYI1_JATCU; Uncharacterized protein
STRING	cassava4.1_002120m	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
AT5G18830.2	0.0	squamosa promoter binding protein-like 7

Link Out ? help Back to Top
Entrez Gene	105631854

Publications ? help Back to Top
Zhang L, et al. Global analysis of gene expression profiles in physic nut (Jatropha curcas L.) seedlings exposed to salt stress. PLoS ONE, 2014. 9(5): p. e97878 [PMID:24837971] 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]