PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT5G12330.4
Common NameLRP1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family SRS
Protein Properties Length: 407aa    MW: 42284.3 Da    PI: 8.3307
Description Lateral root primordium (LRP) protein-related
Gene Model
Gene Model ID Type Source Coding Sequence
AT5G12330.4genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF702212.51e-651933592154
       DUF702   2 rsgtasCqdCGnqakkdCaheRCRtCCksrgfdCathvkstWvpaakrrerqqqlaaasskaaasa.aeaaskrkrel...kskkqsalsstklssae 95 
                  +sgta+CqdCGnqakk+C+++RCRtCCksrgfdC+thvkstWv+aa+rrerq + + a+ +a +s  +++ +k++r     ++++q+a+s+t++s++ 
  AT5G12330.4 193 ASGTATCQDCGNQAKKECKQRRCRTCCKSRGFDCSTHVKSTWVSAARRRERQVMPTGANPTAGSSLsTSSGTKKPRIVgsqQQQQQQATSHTSTSNT- 289
                  57999*************************************************9999988888775777888999876545555556666665554. PP

       DUF702  96 skkeletss...........lPeevsseavfrcvrvssvddgeeelaYqtavsigGhvfkGiLydqGlee 154
                  +++++etss           +P +v+++avf+cvrv++v+dg++e+aYq++v+igGhvfkG+LydqGle 
  AT5G12330.4 290 PPQSFETSSsrqdgggsreaWPGQVRAAAVFKCVRVTAVEDGDDEYAYQAVVKIGGHVFKGFLYDQGLEP 359
                  67788888889********************************************************985 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF051421.6E-58196358IPR007818Protein of unknown function DUF702
TIGRFAMsTIGR016232.5E-26198240IPR006510Zinc finger, lateral root primordium type 1
TIGRFAMsTIGR016242.3E-30309357IPR006511Lateral Root Primordium type 1, C-terminal
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009733Biological Processresponse to auxin
GO:0009734Biological Processauxin-activated signaling pathway
GO:0009851Biological Processauxin biosynthetic process
GO:0048364Biological Processroot development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0042803Molecular Functionprotein homodimerization activity
GO:0046872Molecular Functionmetal ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000016anatomylateral root primordium
PO:0000037anatomyshoot apex
PO:0009005anatomyroot
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009029anatomystamen
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009052anatomyflower pedicel
PO:0020100anatomyhypocotyl
PO:0025022anatomycollective leaf structure
PO:0025281anatomypollen
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001081developmental stagemature plant embryo stage
PO:0001185developmental stageplant embryo globular stage
PO:0004507developmental stageplant embryo bilateral stage
PO:0007511developmental stagelateral root primordium formation stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 407 aa     Download sequence    Send to blast
MYIGALCSVA TTRRHNLPTS DSGAFTDWAA TTTTPSRATE DLSLGFNAGS SVIHGGLGSA  60
SVAAGVPSWP PGSSVRYGLP SSAAATEMGM VGLRDVFLVA PAYHHQNAGV ISGSDHMNSN  120
AAAAAALGVG VIPLLTAGTP QQNVEDSDIN FLGNNRRWQN NNNNHETQYL HFKSTNQTTV  180
GTSSNNSGSG SGASGTATCQ DCGNQAKKEC KQRRCRTCCK SRGFDCSTHV KSTWVSAARR  240
RERQVMPTGA NPTAGSSLST SSGTKKPRIV GSQQQQQQQA TSHTSTSNTP PQSFETSSSR  300
QDGGGSREAW PGQVRAAAVF KCVRVTAVED GDDEYAYQAV VKIGGHVFKG FLYDQGLEPK  360
EGFPSMSDLH LGGSANNHNG VSASAPILDP PNVVYGGGGG SGGGFYS
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.321510.0root
Expression -- Microarray ? help Back to Top
Source ID E-value
Genevisible245208_at0.0
Expression AtlasAT5G12330-
AtGenExpressAT5G12330-
ATTED-IIAT5G12330-
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during the early stages of root primordium development and disappears prior to the emergence of lateral roots from the parent root. {ECO:0000269|PubMed:7647564}.
UniprotTISSUE SPECIFICITY: Restricted to lateral root primordia. {ECO:0000269|PubMed:7647564}.
Functional Description ? help Back to Top
Source Description
TAIRA member of SHI gene family. Arabidopsis thaliana has ten members that encode proteins with a RING finger-like zinc finger motif. Despite being highly divergent in sequence, many of the SHI-related genes are partially redundant in function and synergistically promote gynoecium, stamen and leaf development in Arabidopsis. Expressed in lateral root primordia and induced by auxin. SWP1 is involved in the repression of LRP1 via histone deacetylation.
UniProtTranscription activator that binds DNA on 5'-ACTCTAC-3' and promotes auxin homeostasis-regulating gene expression (e.g. YUC genes), as well as genes affecting stamen development, cell expansion and timing of flowering. Synergistically with other SHI-related proteins, regulates gynoecium, stamen and leaf development in a dose-dependent manner, controlling apical-basal patterning. Promotes style and stigma formation, and influence vascular development during gynoecium development. May also have a role in the formation and/or maintenance of the shoot apical meristem (SAM). Modulates root growth. {ECO:0000269|PubMed:16740146, ECO:0000269|PubMed:18835563}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT5G12330.4
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Expression repressed by LDL1 via histone H3 and H4 deacetylation. {ECO:0000269|PubMed:18835563}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Regulation -- Hormone ? help Back to Top
Source Hormone
AHDauxin
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT5G12330
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0206140.0BT020614.1 Arabidopsis thaliana At5g12330 gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001190295.10.0Lateral root primordium (LRP) protein-like protein
SwissprotQ94CK90.0LRP1_ARATH; Protein LATERAL ROOT PRIMORDIUM 1
TrEMBLA0A178URJ40.0A0A178URJ4_ARATH; LRP1
STRINGAT5G12330.40.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58832646
Representative plantOGRP13131549
Publications ? help Back to Top
  1. Ullah H, et al.
    The beta-subunit of the Arabidopsis G protein negatively regulates auxin-induced cell division and affects multiple developmental processes.
    Plant Cell, 2003. 15(2): p. 393-409
    [PMID:12566580]
  2. Goda H, et al.
    Comprehensive comparison of auxin-regulated and brassinosteroid-regulated genes in Arabidopsis.
    Plant Physiol., 2004. 134(4): p. 1555-73
    [PMID:15047898]
  3. Kuusk S,Sohlberg JJ,Magnus Eklund D,Sundberg E
    Functionally redundant SHI family genes regulate Arabidopsis gynoecium development in a dose-dependent manner.
    Plant J., 2006. 47(1): p. 99-111
    [PMID:16740146]
  4. Krichevsky A,Zaltsman A,Kozlovsky SV,Tian GW,Citovsky V
    Regulation of root elongation by histone acetylation in Arabidopsis.
    J. Mol. Biol., 2009. 385(1): p. 45-50
    [PMID:18835563]
  5. Estornell LH,Landberg K,Cierlik I,Sundberg E
    SHI/STY Genes Affect Pre- and Post-meiotic Anther Processes in Auxin Sensing Domains in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 150
    [PMID:29491878]
  6. Smith DL,Fedoroff NV
    LRP1, a gene expressed in lateral and adventitious root primordia of arabidopsis.
    Plant Cell, 1995. 7(6): p. 735-45
    [PMID:7647564]