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

CCG009230.1

Organism

Populus euphratica

Taxonomic ID

75702

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

SBP

Protein Properties

Length: 809aa MW: 90924 Da PI: 6.5346

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
CCG009230.1	genome	LZU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	115.8	2.3e-36	112	188	1	77
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 +Cqv+gCe+d+se+k yhrrhkvC ++ a++v+++++++r+CqqC++fh ls+fDe+krsCrr+L++hn+rrr+k CCG009230.1 112 RCQVPGCETDISELKGYHRRHKVCLRCATATAVVLDEQTKRYCQQCGKFHVLSDFDEGKRSCRRKLERHNNRRRRKP 188 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	6.7E-28	106	174	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	28.992	110	187	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	4.45E-33	111	190	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	1.2E-26	113	187	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:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 809 aa Download sequence Send to blast
MEIHHPPITT DWDWSDLLDF SVDDQIPLSF DSLGDLPQTI DNPTPEIESQ QVQLPVPDRV 60 RKRDPRLTCS NFLAGIVPCA CPEVDELLRE EEATLPGKKR VRVARAGSSI ARCQVPGCET 120 DISELKGYHR RHKVCLRCAT ATAVVLDEQT KRYCQQCGKF HVLSDFDEGK RSCRRKLERH 180 NNRRRRKPAD SSKASAGDKE VQGCLLTEDT TTCDAEVEKD GLCSSGQMAE KEGLVESEDG 240 HVSTMNSDPN SQNVTSDSGV SFTAFGDMLM DGGKDDSKFS FSPSHCDNKS DYASMCPTGR 300 ISFKLYDWNP AEFPRRLRHQ IFQWLANMPV ELEGYIRPGC TILTAFIAMP TFMWVKLVED 360 PVSYLNDLLG SGKMLSKKGR MRVYVNNMIF NVAKDGNSMM KVNVEGHAPR LHYVHPTCFE 420 VGKPIEFVVC GSNLLQPKFQ FLVSFAGKYL AHDYCVALPQ AHTKGGPGLH HQLFKILTHC 480 NEPNLLGPAF IEVENESGLS NYIPILIGDT EICSEMKIIQ QRFDASHSLI IGSECEVSTM 540 RQTAFSEFFM DIAWLLKEPY AENSQQIMTS FQIQRINSLL NFLLHHESII ILDKILKNLK 600 IMMDKKEANG MINGTSDTST RLLQSYMDYA SNILHEKLQR SEVLKHHLEF SGKENNCISG 660 SCCGNNKESV ALSTENLEQR PDGVLGVIRI SNSTVRSDES PLLTKDIVMR MNPVNERPKK 720 SCDLVFSDRV LKYRPSFYVI ALIAVCFGLC ALVLHPHKVS KLAVSIRRSI KIEPRPSQEV 780 EISAAFFQLD ENSLEAMSNV LASFVSFLY

Sequence ? help Back to Top

Protein Sequence Length: 809 aa Download sequence Send to blast

MEIHHPPITT DWDWSDLLDF SVDDQIPLSF DSLGDLPQTI DNPTPEIESQ QVQLPVPDRV  60
RKRDPRLTCS NFLAGIVPCA CPEVDELLRE EEATLPGKKR VRVARAGSSI ARCQVPGCET  120
DISELKGYHR RHKVCLRCAT ATAVVLDEQT KRYCQQCGKF HVLSDFDEGK RSCRRKLERH  180
NNRRRRKPAD SSKASAGDKE VQGCLLTEDT TTCDAEVEKD GLCSSGQMAE KEGLVESEDG  240
HVSTMNSDPN SQNVTSDSGV SFTAFGDMLM DGGKDDSKFS FSPSHCDNKS DYASMCPTGR  300
ISFKLYDWNP AEFPRRLRHQ IFQWLANMPV ELEGYIRPGC TILTAFIAMP TFMWVKLVED  360
PVSYLNDLLG SGKMLSKKGR MRVYVNNMIF NVAKDGNSMM KVNVEGHAPR LHYVHPTCFE  420
VGKPIEFVVC GSNLLQPKFQ FLVSFAGKYL AHDYCVALPQ AHTKGGPGLH HQLFKILTHC  480
NEPNLLGPAF IEVENESGLS NYIPILIGDT EICSEMKIIQ QRFDASHSLI IGSECEVSTM  540
RQTAFSEFFM DIAWLLKEPY AENSQQIMTS FQIQRINSLL NFLLHHESII ILDKILKNLK  600
IMMDKKEANG MINGTSDTST RLLQSYMDYA SNILHEKLQR SEVLKHHLEF SGKENNCISG  660
SCCGNNKESV ALSTENLEQR PDGVLGVIRI SNSTVRSDES PLLTKDIVMR MNPVNERPKK  720
SCDLVFSDRV LKYRPSFYVI ALIAVCFGLC ALVLHPHKVS KLAVSIRRSI KIEPRPSQEV  780
EISAAFFQLD ENSLEAMSNV LASFVSFLY

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul5_A	1e-44	109	190	2	83	squamosa promoter binding protein-like 7
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	173	185	RRKLERHNNRRRR

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	CT029897	0.0	CT029897.1 Poplar cDNA sequences.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_011014633.1	0.0	PREDICTED: squamosa promoter-binding-like protein 7 isoform X2
Refseq	XP_011014634.1	0.0	PREDICTED: squamosa promoter-binding-like protein 7 isoform X3
Swissprot	Q8S9G8	0.0	SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBL	B9HM86	0.0	B9HM86_POPTR; Uncharacterized protein
STRING	POPTR_0008s20160.1	0.0	(Populus trichocarpa)

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

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]