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_A02G0446

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: 810aa MW: 90583 Da PI: 6.6971

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_A02G0446	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	116.9	1.1e-36	143	218	1	76
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkk 76 +Cqv++Cead++e+k yhrrh+vC +++++++vl++g+++r+CqqC++fh ls+fDe+krsCrr+L++hn+rrr+k Gh_A02G0446 143 RCQVPACEADIAELKGYHRRHRVCLQCANSSTVLINGESKRYCQQCGKFHLLSDFDEGKRSCRRKLERHNNRRRRK 218 6************************************************************************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	7.1E-28	138	205	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	29.197	141	218	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	1.57E-32	143	221	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	2.6E-26	144	218	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: 810 aa Download sequence Send to blast
MEQPASSPNT TPRGSPRSKD PQMDVHLPVT EPDLSFSSVW DWGDLLDFTL DDHFSISLDD 60 GNMYPPPFEA SPSVPDPDPE PVSGPDRVRK RDPRMTCSNF LAGRVPCACP EIDEQMEKLE 120 EEEAGAPGKK RARIGRVGSG TSRCQVPACE ADIAELKGYH RRHRVCLQCA NSSTVLINGE 180 SKRYCQQCGK FHLLSDFDEG KRSCRRKLER HNNRRRRKPV GSKTEVNKES LGALQSEDIG 240 CDGEAGKDDL SLSGQTAEEP PFESEDGLVS ADCSAPMLQT VNNDSTVALI DTGTDGGKED 300 LKFSISTSYH DNRTAYSSMC PTGRMSFKLY DWNPAEFPRR LRHQIFQWLA DMPVELEGYI 360 RPGCTILTVF ISMPKNMWKK LSENPMTYMH DFVFTPGRML HGRGLMTIHL NNMIFRTSKG 420 GSSLVKLDMG VQAPRLHYVH PSCFEAGKPM EFVACGSNLL QPKLQFLVSF AGRYLPYDYC 480 LASAHVNATE GSSSCDHQLY KIYVPQTESD LFGPVFIEVE NQSGLSNFIP VLIGDKDVCS 540 EMKVIQQGFE QGFDASLFWG GSQISANKSS CETSTLRQKA YSELVLDIAW LLREPKSENF 600 QETMASSQIQ RFNCLLNFLI QNKSTVILKK VLQNLKNVVE EAGFNGTDDP DTRLLKKYMD 660 YARDILKNKL QEGERPVLLS KYIEQEGKWN SQSSLKNDGL FVPNGSQDLG ERTNAKFQTM 720 MASTTLTRSE TVPLLNKEIV MNVNLSKERP RKSCSTIFAT TTLRSCPALF VVATAAICLG 780 ICAVFLHPTR VGEFAVTIRR CLSKRSYIIE

Sequence ? help Back to Top

Protein Sequence Length: 810 aa Download sequence Send to blast

MEQPASSPNT TPRGSPRSKD PQMDVHLPVT EPDLSFSSVW DWGDLLDFTL DDHFSISLDD  60
GNMYPPPFEA SPSVPDPDPE PVSGPDRVRK RDPRMTCSNF LAGRVPCACP EIDEQMEKLE  120
EEEAGAPGKK RARIGRVGSG TSRCQVPACE ADIAELKGYH RRHRVCLQCA NSSTVLINGE  180
SKRYCQQCGK FHLLSDFDEG KRSCRRKLER HNNRRRRKPV GSKTEVNKES LGALQSEDIG  240
CDGEAGKDDL SLSGQTAEEP PFESEDGLVS ADCSAPMLQT VNNDSTVALI DTGTDGGKED  300
LKFSISTSYH DNRTAYSSMC PTGRMSFKLY DWNPAEFPRR LRHQIFQWLA DMPVELEGYI  360
RPGCTILTVF ISMPKNMWKK LSENPMTYMH DFVFTPGRML HGRGLMTIHL NNMIFRTSKG  420
GSSLVKLDMG VQAPRLHYVH PSCFEAGKPM EFVACGSNLL QPKLQFLVSF AGRYLPYDYC  480
LASAHVNATE GSSSCDHQLY KIYVPQTESD LFGPVFIEVE NQSGLSNFIP VLIGDKDVCS  540
EMKVIQQGFE QGFDASLFWG GSQISANKSS CETSTLRQKA YSELVLDIAW LLREPKSENF  600
QETMASSQIQ RFNCLLNFLI QNKSTVILKK VLQNLKNVVE EAGFNGTDDP DTRLLKKYMD  660
YARDILKNKL QEGERPVLLS KYIEQEGKWN SQSSLKNDGL FVPNGSQDLG ERTNAKFQTM  720
MASTTLTRSE TVPLLNKEIV MNVNLSKERP RKSCSTIFAT TTLRSCPALF VVATAAICLG  780
ICAVFLHPTR VGEFAVTIRR CLSKRSYIIE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul5_A	7e-43	142	220	4	82	squamosa promoter binding protein-like 7
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	204	216	RRKLERHNNRRRR

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_017649675.1	0.0	PREDICTED: squamosa promoter-binding-like protein 7 isoform X1
Swissprot	Q8S9G8	0.0	SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBL	A0A0B0P906	0.0	A0A0B0P906_GOSAR; Squamosa promoter-binding-like protein 7
STRING	Gorai.005G056500.1	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]