PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Spipo11G0057100
Organism
Spirodela polyrhiza
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Araceae; Lemnoideae; Spirodela
Family LBD
Protein Properties Length: 234aa    MW: 25347.5 Da    PI: 6.0609
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Spipo11G0057100genomeMIPS/IBISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260116.31.9e-36799192
           DUF260  1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlka 92
                     +C aCk+lrrkC+++Cv+apyf++eq + +fa++hk+FGasnv+kll +lp  +r +a+ ++ yeA+ar++dPvyG+v++i++lqqq++ l  
  Spipo11G0057100  7 PCGACKFLRRKCVRGCVFAPYFCHEQgATHFAAIHKVFGASNVSKLLMHLPLPDRCEAAVTISYEAQARLQDPVYGCVSHIFALQQQVCALPL 99
                     7*************************89************************************************************98754 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089120.6196108IPR004883Lateral organ boundaries, LOB
PfamPF031953.3E-34797IPR004883Lateral organ boundaries, LOB
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010311Biological Processlateral root formation
GO:0005634Cellular Componentnucleus
Sequence ? help Back to Top
Protein Sequence    Length: 234 aa     Download sequence    Send to blast
MTGFGSPCGA CKFLRRKCVR GCVFAPYFCH EQGATHFAAI HKVFGASNVS KLLMHLPLPD  60
RCEAAVTISY EAQARLQDPV YGCVSHIFAL QQQVCALPLV VNLQAQLASL KAQAAQSYAA  120
GTQDDFCNSL PPYQQQGQSC LPSGDDAKMM RTILSNQNVE NNSSLQFYGS TMVDSDRVES  180
SMEYDHSSNA DVHLQFGGDD GSACVDVQIN GRKSAYQDMD DLQSAALAYL RHS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A1e-32394797LOB family transfactor Ramosa2.1
5ly0_B1e-32394797LOB family transfactor Ramosa2.1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtActs as positive regulator of adventitious (crown) root formation by promoting its initiation (PubMed:15829602, PubMed:15960615). Acts as positive regulator of lateral root formation. Regulated by the auxin response factor and transcriptional activator ARF23/ARF1 (PubMed:15829602). Involved in auxin-mediated cell dedifferentiation, and may promote the initial cell division in the pericycle cells adjacent to the peripheral vascular cylinder at the base of the stem (PubMed:15960615). May act upstream of the gene regulatory network controlling adventitious root (crown) development (PubMed:21806801). {ECO:0000269|PubMed:15829602, ECO:0000269|PubMed:15960615, ECO:0000269|PubMed:21806801}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by auxin (PubMed:15829602, PubMed:15960615). Induced by ethylene (PubMed:15960615). {ECO:0000269|PubMed:15829602, ECO:0000269|PubMed:15960615}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010262268.11e-89PREDICTED: LOB domain-containing protein 29
SwissprotQ5UG138e-66LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBLA0A1U8AIH73e-88A0A1U8AIH7_NELNU; LOB domain-containing protein 29
STRINGXP_010262268.15e-89(Nelumbo nucifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP25013893
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G58190.12e-58lateral organ boundaries-domain 29
Publications ? help Back to Top
  1. Coudert Y,Périn C,Courtois B,Khong NG,Gantet P
    Genetic control of root development in rice, the model cereal.
    Trends Plant Sci., 2010. 15(4): p. 219-26
    [PMID:20153971]
  2. Kitomi Y, et al.
    The auxin responsive AP2/ERF transcription factor CROWN ROOTLESS5 is involved in crown root initiation in rice through the induction of OsRR1, a type-A response regulator of cytokinin signaling.
    Plant J., 2011. 67(3): p. 472-84
    [PMID:21481033]
  3. Coudert Y, et al.
    Transcript profiling of crown rootless1 mutant stem base reveals new elements associated with crown root development in rice.
    BMC Genomics, 2011. 12: p. 387
    [PMID:21806801]