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

AA40G00238

Organism

Aethionema arabicum

Taxonomic ID

228871

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Aethionemeae; Aethionema

Family

SBP

Protein Properties

Length: 801aa MW: 90325.8 Da PI: 8.3676

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AA40G00238	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	116	2e-36	141	217	1	77
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S-- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkq 77 +Cqv+gCead+se+k yhrrh+vC +++a+ v+++g ++r+CqqC++fh l +fDe+krsCrr+L++hn+rr++k AA40G00238 141 RCQVPGCEADISELKGYHRRHRVCLRCANASFVVLDGDNKRYCQQCGKFHVLPDFDEGKRSCRRKLERHNNRRKRKP 217 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	1.8E-28	137	203	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	29.598	139	216	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	4.58E-34	140	220	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	3.6E-27	142	215	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: 801 aa Download sequence Send to blast
MSSASQPPPA PEMEIQPPAL LNDDPSTYSS TLWDWGDLLD FASDERLLVS IDSDQTPFSP 60 RRSLPTPESL IPTQHPAESE SYPSPESGSG SDRIRKRDPR MICPNFLEGM VPCSCPELDQ 120 KLEEAELPKK KRVRGVSGVA RCQVPGCEAD ISELKGYHRR HRVCLRCANA SFVVLDGDNK 180 RYCQQCGKFH VLPDFDEGKR SCRRKLERHN NRRKRKPVDK VGGAEKQQPV LSQNENTVID 240 VDDGIGSGEA QKDEGINDTK VELSPSGGDN KSAYSTVVGF YLVLTSQPSC PTGRISFKLY 300 DWNPAEFPRR LRHQVFSSFI YYSLVFRDYA FSLQKLKELI FYVIKLQIFQ WLAAMPVELE 360 GYIRPGCTIL TVFVAMPEIM WAKLSKDPVA YLDEFILKPG KMLFGRGPMT VYLNNMIFRG 420 TTLKRVDVKL QSPKLQFVYP TCFEAGKPIE FVVCGHNLLQ PKCRFLVSFS GKYLPHNYSV 480 VSAPAKDGKS SCNNKFYKIN IMNSDPYLFG PAFVEVENES GLSNFIPLII GDKSICSEMK 540 LIEQKFNATL YPKGQEVTAC SSLVCLCKES EEKQRNFSGL LLDIAWSVKV PSSECTKQTM 600 NRCQIRRYNR VLNYLIQSHS TSILGNVLHN LENLVKKMKP DSLVHCISDS DVKLLHENMS 660 LASEVYRKHQ NSKENPTHVL ASPSGCCCDN SYQKCIPSRT VNFNQDPEAG LDCTERILTN 720 NNEIETNPLL NKEVVMNVNN IRNWPRKSCI SMYPSQAFKS RQTVILIATF AVCLAVCAVI 780 YHPNKVTQVA VAIRMRLGNK L

Sequence ? help Back to Top

Protein Sequence Length: 801 aa Download sequence Send to blast

MSSASQPPPA PEMEIQPPAL LNDDPSTYSS TLWDWGDLLD FASDERLLVS IDSDQTPFSP  60
RRSLPTPESL IPTQHPAESE SYPSPESGSG SDRIRKRDPR MICPNFLEGM VPCSCPELDQ  120
KLEEAELPKK KRVRGVSGVA RCQVPGCEAD ISELKGYHRR HRVCLRCANA SFVVLDGDNK  180
RYCQQCGKFH VLPDFDEGKR SCRRKLERHN NRRKRKPVDK VGGAEKQQPV LSQNENTVID  240
VDDGIGSGEA QKDEGINDTK VELSPSGGDN KSAYSTVVGF YLVLTSQPSC PTGRISFKLY  300
DWNPAEFPRR LRHQVFSSFI YYSLVFRDYA FSLQKLKELI FYVIKLQIFQ WLAAMPVELE  360
GYIRPGCTIL TVFVAMPEIM WAKLSKDPVA YLDEFILKPG KMLFGRGPMT VYLNNMIFRG  420
TTLKRVDVKL QSPKLQFVYP TCFEAGKPIE FVVCGHNLLQ PKCRFLVSFS GKYLPHNYSV  480
VSAPAKDGKS SCNNKFYKIN IMNSDPYLFG PAFVEVENES GLSNFIPLII GDKSICSEMK  540
LIEQKFNATL YPKGQEVTAC SSLVCLCKES EEKQRNFSGL LLDIAWSVKV PSSECTKQTM  600
NRCQIRRYNR VLNYLIQSHS TSILGNVLHN LENLVKKMKP DSLVHCISDS DVKLLHENMS  660
LASEVYRKHQ NSKENPTHVL ASPSGCCCDN SYQKCIPSRT VNFNQDPEAG LDCTERILTN  720
NNEIETNPLL NKEVVMNVNN IRNWPRKSCI SMYPSQAFKS RQTVILIATF AVCLAVCAVI  780
YHPNKVTQVA VAIRMRLGNK L

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul5_A	8e-49	139	224	3	88	squamosa promoter binding protein-like 7
Search in ModeBase

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AA40G00238

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_002871844.1	0.0	squamosa promoter-binding-like protein 7 isoform X2
Swissprot	Q8S9G8	0.0	SPL7_ARATH; Squamosa promoter-binding-like protein 7
TrEMBL	D7LYI0	0.0	D7LYI0_ARALL; Uncharacterized protein
STRING	scaffold_601959.1	0.0	(Arabidopsis lyrata)

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
AT5G18830.1	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]