PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Vradi08g08690.1
Organism
Vigna radiata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna
Family LBD
Protein Properties Length: 237aa    MW: 26361.5 Da    PI: 6.0664
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Vradi08g08690.1genomeSNUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF26067.43.3e-213492158
           DUF260  1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredam 58
                     +C aCk+lrrkC+++Cv+apyf++eq + +fa++hk+FGasnv+kll++lp ++r +a+
  Vradi08g08690.1 34 PCGACKFLRRKCVRGCVFAPYFCHEQgATHFAAIHKVFGASNVSKLLAHLPVTDRCEAA 92
                     7*************************89************************9987664 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089114.81133136IPR004883Lateral organ boundaries, LOB
PfamPF031954.9E-193492IPR004883Lateral organ boundaries, LOB
Sequence ? help Back to Top
Protein Sequence    Length: 237 aa     Download sequence    Send to blast
MLINDHVHKH EAEEIIEPEI IPIKKSMMTG SGSPCGACKF LRRKCVRGCV FAPYFCHEQG  60
ATHFAAIHKV FGASNVSKLL AHLPVTDRCE AAVVNLQAQL AYLKEQAAQS CLNASVTENP  120
SEKLFEKSSA SIPQDLQSWF QVENSNLGPE FLPNMCTNFS TQKHYGNNLI EDLNPIGINY  180
ENSGAMEENS SFSSFDESSN SYSMSYDMHT NRRTWGFHEV EDLHSVAFGY STRTHS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A3e-193096771LOB family transfactor Ramosa2.1
5ly0_B3e-193096771LOB 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapVradi08g08690.1
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0150410.0AP015041.1 Vigna angularis var. angularis DNA, chromosome 8, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_014513182.21e-150LOB domain-containing protein 29
SwissprotQ5UG133e-42LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBLA0A1S3V4R61e-148A0A1S3V4R6_VIGRR; LOB domain-containing protein 29
STRINGXP_007144924.11e-130(Phaseolus vulgaris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF35713366
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G58190.11e-42lateral 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]