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

Gh_D10G1634

Organism

Gossypium hirsutum

Taxonomic ID

3635

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

SBP

Protein Properties

Length: 793aa MW: 89616.2 Da PI: 6.5068

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_D10G1634	genome	NAU-NBI	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	136	211	1	76
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkk 76 +Cqv+gCe+d+se+k yhrrh++C ++++++vl++g+++r+CqqC++fh ls+fDe+krsCrr+L++hn rrr+k Gh_D10G1634 136 RCQVPGCEVDISELKGYHRRHRICLRCANSSTVLIDGETKRYCQQCGKFHLLSDFDEGKRSCRRKLERHNIRRRRK 211 6**********************************************************************99997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	3.0E-28	131	198	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	29.325	134	211	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	2.22E-32	135	213	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	2.2E-27	137	211	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: 793 aa Download sequence Send to blast
MDQDPSPATQ TPRGDHRSEN RKMDFPVTGP ELASSVWDWN DLLELTSDDH LPISFDDYGF 60 SPPPLEVLAG DPNTVPAPDR VRKRDPRMTC SNFIAGRVPC ACPEIDAQVE KLEEEEAGAP 120 GKKRARTGRV GSGTCRCQVP GCEVDISELK GYHRRHRICL RCANSSTVLI DGETKRYCQQ 180 CGKFHLLSDF DEGKRSCRRK LERHNIRRRR KIVGSKTAVN KESQGAIQSD GIACDGEAGK 240 DDLSGLIAEE EPAFESEEAL VSAHCSAPLL QDIRNDSVVT LIDTETDGGK DDSKFSNSTS 300 YCDSKTAYSS MCPTGRISFK LYDWNPAEFP RRLRHQIFEW LANMPVELEG YIRPGCTILT 360 VFISMPNNMW AKLSENPMTY MHDFVFRPGR MLYGRGFMTI YLNNMIFHTR KDGTSMVKID 420 PEVQVPRLHF VYPACFEAGK PMEFVACGSN LLQPKFRFLV SFAGRYLPCY YRVASSLVQS 480 KDDSPSCDHQ LYKIYIPQTE PDLFGPAFIE VENQSGLSNF IPVLIGDKEV CSEMKSIQQR 540 FDASVFQERS IFSTTGSLFE ACEMSTSQHR AYSEFLLDIA WLLREPKLEN FKETIASSQI 600 LRFNRLLSFL IQNESTIILK KILQNLKIVV EMIGFDGTND SGVRLLQKYM NHARDILSDE 660 LQKGEIPVFR SEYIEQERNQ VSQSSFDNNE LPIVPKISQV LEERTSKLQT IMAAPTPSET 720 VPLLNKENIM NVNLSKDYSR KSCGFATMRL RSHAAVLIIA ATAICLGMCA VIFHPNRVGE 780 FAVTMRRCLF DRV

Sequence ? help Back to Top

Protein Sequence Length: 793 aa Download sequence Send to blast

MDQDPSPATQ TPRGDHRSEN RKMDFPVTGP ELASSVWDWN DLLELTSDDH LPISFDDYGF  60
SPPPLEVLAG DPNTVPAPDR VRKRDPRMTC SNFIAGRVPC ACPEIDAQVE KLEEEEAGAP  120
GKKRARTGRV GSGTCRCQVP GCEVDISELK GYHRRHRICL RCANSSTVLI DGETKRYCQQ  180
CGKFHLLSDF DEGKRSCRRK LERHNIRRRR KIVGSKTAVN KESQGAIQSD GIACDGEAGK  240
DDLSGLIAEE EPAFESEEAL VSAHCSAPLL QDIRNDSVVT LIDTETDGGK DDSKFSNSTS  300
YCDSKTAYSS MCPTGRISFK LYDWNPAEFP RRLRHQIFEW LANMPVELEG YIRPGCTILT  360
VFISMPNNMW AKLSENPMTY MHDFVFRPGR MLYGRGFMTI YLNNMIFHTR KDGTSMVKID  420
PEVQVPRLHF VYPACFEAGK PMEFVACGSN LLQPKFRFLV SFAGRYLPCY YRVASSLVQS  480
KDDSPSCDHQ LYKIYIPQTE PDLFGPAFIE VENQSGLSNF IPVLIGDKEV CSEMKSIQQR  540
FDASVFQERS IFSTTGSLFE ACEMSTSQHR AYSEFLLDIA WLLREPKLEN FKETIASSQI  600
LRFNRLLSFL IQNESTIILK KILQNLKIVV EMIGFDGTND SGVRLLQKYM NHARDILSDE  660
LQKGEIPVFR SEYIEQERNQ VSQSSFDNNE LPIVPKISQV LEERTSKLQT IMAAPTPSET  720
VPLLNKENIM NVNLSKDYSR KSCGFATMRL RSHAAVLIIA ATAICLGMCA VIFHPNRVGE  780
FAVTMRRCLF DRV

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul5_A	1e-40	136	213	5	82	squamosa promoter binding protein-like 7
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	197	209	RRKLERHNIRRRR

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ghi.25098	0.0	boll

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Expressed constitutively during plant development. {ECO:0000269\|PubMed:10524240}.
Uniprot	TISSUE SPECIFICITY: Expressed in roots rosette leaves, cauline leaves, stems, flowers and siliques. {ECO:0000269\|PubMed:24335506}.

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}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	KJ622315	0.0	KJ622315.1 Gossypium hirsutum SQUAMOSA promoter binding-like transcription factor (SPL7) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016700772.1	0.0	PREDICTED: squamosa promoter-binding-like protein 7 isoform X2
Swissprot	Q8S9G8	0.0	SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBL	A0A1U8KE42	0.0	A0A1U8KE42_GOSHI; squamosa promoter-binding-like protein 7 isoform X2
STRING	Gorai.011G183800.1	0.0	(Gossypium raimondii)

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
AT5G18830.2	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]