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 NNU_010857-RA
Organism
Nelumbo nucifera
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; stem eudicotyledons; Proteales; Nelumbonaceae; Nelumbo
Family LBD
Protein Properties Length: 232aa    MW: 25877.1 Da    PI: 5.5461
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
NNU_010857-RAgenomeCASView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260125.33.1e-3971071100
         DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 
                    +C aCk+lrrkC+++Cv+apyf++eq + +fa++hk+FGasnv+kll++lp ++r +a+ ++ yeA+ar++dP+yG+v++i++lqqq+ +l+a+la
  NNU_010857-RA   7 PCGACKFLRRKCVRGCVFAPYFCHEQgATHFAAIHKVFGASNVSKLLAHLPVTDRCEAAVTISYEAQARLQDPIYGCVSHIFALQQQVVNLQAQLA 102
                    7*************************89******************************************************************** PP

         DUF260  96 llkee 100
                    +lk++
  NNU_010857-RA 103 TLKAQ 107
                    99987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089121.9696108IPR004883Lateral organ boundaries, LOB
PfamPF031953.1E-377105IPR004883Lateral 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: 232 aa     Download sequence    Send to blast
MTGFGSPCGA CKFLRRKCVR GCVFAPYFCH EQGATHFAAI HKVFGASNVS KLLAHLPVTD  60
RCEAAVTISY EAQARLQDPI YGCVSHIFAL QQQVVNLQAQ LATLKAQAAQ NLVNGSTTSS  120
PQEDKFYGKF PSYPQDVQGL FISENSRMAQ QFLPNQNTNV DSLMYYDNGY MDLNPMDEYQ  180
NSVVPEETVS FTSFEDPSHA MASLDMQANS RKWAFQDMDD LQSVAFSYLQ RS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A1e-3431017104LOB family transfactor Ramosa2.1
5ly0_B1e-3431017104LOB 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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010262268.11e-176PREDICTED: LOB domain-containing protein 29
SwissprotQ5UG133e-71LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBLA0A1U8AIH71e-174A0A1U8AIH7_NELNU; LOB domain-containing protein 29
STRINGXP_010262268.11e-175(Nelumbo nucifera)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G58190.12e-55lateral 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]