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

AT5G50670.1

Common Name

MBA10.13, SPL13, SPL13B

Organism

Arabidopsis thaliana

Taxonomic ID

3702

Taxonomic Lineage

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

Family

SBP

Protein Properties

Length: 359aa MW: 39108.4 Da PI: 7.9385

Description

SBP family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AT5G50670.1	genome	TAIR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	SBP	132	2e-41	100	177	1	78
--SSTT-----TT--HHHHHTT--HHHHT-S-EEETTEEEEE-TTTSSEEETTT--SS--S-STTTT-------S--- CS SBP 1 lCqvegCeadlseakeyhrrhkvCevhskapvvlvsgleqrfCqqCsrfhelsefDeekrsCrrrLakhnerrrkkqa 78 +C v+gC++d+s+++eyh+rhkvC+vhsk+pvv+++g++qrfCqqCsrfh+l+efDe+krsCr+rL++hn+rrrk+q+ AT5G50670.1 100 ICLVDGCDSDFSNCREYHKRHKVCDVHSKTPVVTINGHKQRFCQQCSRFHALEEFDEGKRSCRKRLDGHNRRRRKPQP 177 5**************************************************************************997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:4.10.1100.10	9.6E-33	94	162	IPR004333	Transcription factor, SBP-box
PROSITE profile	PS51141	31.915	98	175	IPR004333	Transcription factor, SBP-box
SuperFamily	SSF103612	2.88E-39	99	180	IPR004333	Transcription factor, SBP-box
Pfam	PF03110	3.7E-30	101	174	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:0048653	Biological Process	anther development
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding
GO:0046872	Molecular Function	metal ion binding

Plant Ontology ? help Back to Top
PO Term	PO Category	PO Description
PO:0000293	anatomy	guard cell

Sequence ? help Back to Top
Protein Sequence Length: 359 aa Download sequence Send to blast
MDWNFKLSSG YLSGFDQEPD LSPMDGSISF GGSSQSKADF SFDLKLGRNI GNSSSVFGDT 60 EQVISLSKWK DSALAKPEGS RSSSSKRTRG NGVGTNQMPI CLVDGCDSDF SNCREYHKRH 120 KVCDVHSKTP VVTINGHKQR FCQQCSRFHA LEEFDEGKRS CRKRLDGHNR RRRKPQPEHI 180 GRPANFFTGF QGSKLLEFSG GSHVFPTTSV LNPSWGNSLV SVAVAANGSS YGQSQSYVVG 240 SSPAKTGIMF PISSSPNSTR SIAKQFPFLQ EEESSRTASL CERMTSCIHD SDCALSLLSS 300 SSSSVPHLLQ PPLSLSQEAV ETVFYGSGLF ENASAVSDGS VISGNEAVRL PQTFPFHWE

Sequence ? help Back to Top

Protein Sequence Length: 359 aa Download sequence Send to blast

MDWNFKLSSG YLSGFDQEPD LSPMDGSISF GGSSQSKADF SFDLKLGRNI GNSSSVFGDT  60
EQVISLSKWK DSALAKPEGS RSSSSKRTRG NGVGTNQMPI CLVDGCDSDF SNCREYHKRH  120
KVCDVHSKTP VVTINGHKQR FCQQCSRFHA LEEFDEGKRS CRKRLDGHNR RRRKPQPEHI  180
GRPANFFTGF QGSKLLEFSG GSHVFPTTSV LNPSWGNSLV SVAVAANGSS YGQSQSYVVG  240
SSPAKTGIMF PISSSPNSTR SIAKQFPFLQ EEESSRTASL CERMTSCIHD SDCALSLLSS  300
SSSSVPHLLQ PPLSLSQEAV ETVFYGSGLF ENASAVSDGS VISGNEAVRL PQTFPFHWE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ul4_A	2e-28	94	174	4	84	squamosa promoter binding protein-like 4
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	157	174	KRSCRKRLDGHNRRRRKP

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
At.29720	0.0	leaf

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	145362037	0.0
Genevisible	248524_s_at	0.0
Expression Atlas	AT5G50670	-
AtGenExpress	AT5G50670	-

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: Weak increase of expression during floral induction. {ECO:0000269\|PubMed:14573523}.

Functional Description ? help Back to Top
Source	Description
UniProt	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000250}.
UniProt	Trans-acting factor that binds specifically to the consensus nucleotide sequence 5'-TNCGTACAA-3'. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AT5G50670.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Negatively regulated by microRNAs miR156 and miR157. {ECO:0000305\|PubMed:12202040}.

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

Phenotype -- Mutation ? help Back to Top
Source	ID
T-DNA Express	AT5G50670

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK117475	0.0	AK117475.1 Arabidopsis thaliana At5g50670 mRNA for unknown protein, complete cds, clone: RAFL17-08-M12.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001332253.1	0.0	Squamosa promoter-binding protein-like (SBP domain) transcription factor family protein
Refseq	NP_568731.1	0.0	Squamosa promoter-binding protein-like (SBP domain) transcription factor family protein
Refseq	NP_568740.1	0.0	Squamosa promoter-binding protein-like (SBP domain) transcription factor family protein
Refseq	NP_851161.1	0.0	Squamosa promoter-binding protein-like (SBP domain) transcription factor family protein
Swissprot	B9DI20	0.0	SP13A_ARATH; Squamosa promoter-binding-like protein 13A
Swissprot	P0DI11	0.0	SP13B_ARATH; Squamosa promoter-binding-like protein 13B
TrEMBL	A0A178UFC6	0.0	A0A178UFC6_ARATH; Uncharacterized protein
STRING	AT5G50570.1	0.0	(Arabidopsis thaliana)
STRING	AT5G50670.1	0.0	(Arabidopsis thaliana)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM4111	27	59
Representative plant	OGRP97	17	230

Link Out ? help Back to Top
Phytozome	AT5G50670.1
Entrez Gene	835126
iHOP	AT5G50670
wikigenes	AT5G50670

Publications ? help Back to Top
Riechmann JL, et al. Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes. Science, 2000. 290(5499): p. 2105-10 [PMID:11118137] Seki M, et al. Functional annotation of a full-length Arabidopsis cDNA collection. Science, 2002. 296(5565): p. 141-5 [PMID:11910074] Rhoades MW, et al. Prediction of plant microRNA targets. Cell, 2002. 110(4): p. 513-20 [PMID:12202040] Schmid M, et al. Dissection of floral induction pathways using global expression analysis. Development, 2003. 130(24): p. 6001-12 [PMID:14573523] Yoo BC, et al. A systemic small RNA signaling system in plants. Plant Cell, 2004. 16(8): p. 1979-2000 [PMID:15258266] DeCook R,Lall S,Nettleton D,Howell SH Genetic regulation of gene expression during shoot development in Arabidopsis. Genetics, 2006. 172(2): p. 1155-64 [PMID:15956669] Truman W,de Zabala MT,Grant M Type III effectors orchestrate a complex interplay between transcriptional networks to modify basal defence responses during pathogenesis and resistance. Plant J., 2006. 46(1): p. 14-33 [PMID:16553893] Brodersen P, et al. Arabidopsis MAP kinase 4 regulates salicylic acid- and jasmonic acid/ethylene-dependent responses via EDS1 and PAD4. Plant J., 2006. 47(4): p. 532-46 [PMID:16813576] Lobbes D,Rallapalli G,Schmidt DD,Martin C,Clarke J SERRATE: a new player on the plant microRNA scene. EMBO Rep., 2006. 7(10): p. 1052-8 [PMID:16977334] Gandikota M, et al. The miRNA156/157 recognition element in the 3' UTR of the Arabidopsis SBP box gene SPL3 prevents early flowering by translational inhibition in seedlings. Plant J., 2007. 49(4): p. 683-93 [PMID:17217458] Wang JW,Schwab R,Czech B,Mica E,Weigel D Dual effects of miR156-targeted SPL genes and CYP78A5/KLUH on plastochron length and organ size in Arabidopsis thaliana. Plant Cell, 2008. 20(5): p. 1231-43 [PMID:18492871] Guo AY, et al. Genome-wide identification and evolutionary analysis of the plant specific SBP-box transcription factor family. Gene, 2008. 418(1-2): p. 1-8 [PMID:18495384] Laubinger S, et al. Dual roles of the nuclear cap-binding complex and SERRATE in pre-mRNA splicing and microRNA processing in Arabidopsis thaliana. Proc. Natl. Acad. Sci. U.S.A., 2008. 105(25): p. 8795-800 [PMID:18550839] Ascencio-Ib Global analysis of Arabidopsis gene expression uncovers a complex array of changes impacting pathogen response and cell cycle during geminivirus infection. Plant Physiol., 2008. 148(1): p. 436-54 [PMID:18650403] Xing S,Salinas M,H miR156-targeted and nontargeted SBP-box transcription factors act in concert to secure male fertility in Arabidopsis. Plant Cell, 2010. 22(12): p. 3935-50 [PMID:21177480] Jorgensen SA,Preston JC Differential SPL gene expression patterns reveal candidate genes underlying flowering time and architectural differences in Mimulus and Arabidopsis. Mol. Phylogenet. Evol., 2014. 73: p. 129-39 [PMID:24508602] Xu M, et al. Developmental Functions of miR156-Regulated SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) Genes in Arabidopsis thaliana. PLoS Genet., 2016. 12(8): p. e1006263 [PMID:27541584]