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 KN539457.1_FGP004
Organism
Oryza longistaminata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family bHLH
Protein Properties Length: 566aa    MW: 63073.5 Da    PI: 6.6
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN539457.1_FGP004genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH31.53.2e-10108152655
                        HHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                HLH   6 nerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                           Er+RR r+++++ eLr l+P+      +K++Ka+i   Av Y+k+Lq
  KN539457.1_FGP004 108 IVSERKRRVRMKEKLYELRALVPNI-----TKMDKASIIADAVVYVKDLQ 152
                        568*********************7.....7******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF474595.76E-1593165IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000837.57E-11100153No hitNo description
PROSITE profilePS5088815.294102151IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.105.5E-16104171IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003538.2E-12108157IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000109.6E-8108152IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:1.10.245.108.1E-30337428IPR003121SWIB/MDM2 domain
SuperFamilySSF475921.31E-26337427IPR003121SWIB/MDM2 domain
SMARTSM001511.8E-20343422IPR019835SWIB domain
PfamPF022015.5E-23346417IPR003121SWIB/MDM2 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006281Biological ProcessDNA repair
GO:0009909Biological Processregulation of flower development
GO:0010224Biological Processresponse to UV-B
GO:0010468Biological Processregulation of gene expression
GO:0048364Biological Processroot development
GO:2000024Biological Processregulation of leaf development
GO:0005634Cellular Componentnucleus
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 566 aa     Download sequence    Send to blast
MSPSFFDSGV FADVGGDWME DLMHLGELFG VGDDDNGGAD GGVGGGDDRM REWRNNCEGG  60
GSPEYHQPSC GDGDGDGDGD VSPRDGELGD GDGDNSATRK RRDRSKTIVS ERKRRVRMKE  120
KLYELRALVP NITKMDKASI IADAVVYVKD LQAHARKLKE EVSEAEEDVS TISECTVKLW  180
VMAALLKEGF RPQPTLLEFE SRVDAALHRK KVDIQEALKS PPALQRTLRI YVFNTFANQA  240
PRTIPPPKNA EPPTWSLKII GRVLEDGAEL DPASVVPKHN PVYPKFSSFF KRVTIALDPS  300
LYPENPLIIW ENARSAAPQE GFEVKRKGDK EFSANIRLEM NYNPEKFKLS QPLMEVLGVE  360
VDTRSRVIAA LWQYIKAKKL QNPTDPSFFM CDPQLKKVFG EDKLRFAMLS QKISQHLSPP  420
PPINLEHKIK LSGNGAHASA CYDVIVDVPF PLQKEMSAFL ANTEKHKDIE ACDEVISASI  480
KKIHEHRRRR AFFLGFSQSP VEFINALIAS QSKDLKLIAG EANRNIERER RADFYNQPWV  540
EDAVIRYLNR KPASGNEGPG GGAGGS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1v31_A6e-32344417982hypothetical protein RAFL11-05-P19
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
199114KRRDRSKTIVSERKRR
Functional Description ? help Back to Top
Source Description
UniProtInvolved in transcriptional activation and repression of select genes by chromatin remodeling (alteration of DNA-nucleosome topology). {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapKN539457.1_FGP004
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1082180.0AK108218.1 Oryza sativa Japonica Group cDNA clone:002-140-E07, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015637176.10.0SWI/SNF complex component SNF12 homolog
SwissprotQ9FMT40.0SNF12_ARATH; SWI/SNF complex component SNF12 homolog
TrEMBLA0A0D3FV160.0A0A0D3FV16_9ORYZ; Uncharacterized protein
STRINGOBART04G10140.10.0(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP594933
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G28160.14e-24FER-like regulator of iron uptake
Publications ? help Back to Top
  1. Meinke D,Sweeney C,Muralla R
    Integrating the genetic and physical maps of Arabidopsis thaliana: identification of mapped alleles of cloned essential (EMB) genes.
    PLoS ONE, 2009. 4(10): p. e7386
    [PMID:19812694]
  2. Campi M,D'Andrea L,Emiliani J,Casati P
    Participation of chromatin-remodeling proteins in the repair of ultraviolet-B-damaged DNA.
    Plant Physiol., 2012. 158(2): p. 981-95
    [PMID:22170978]
  3. Sacharowski SP, et al.
    SWP73 Subunits of Arabidopsis SWI/SNF Chromatin Remodeling Complexes Play Distinct Roles in Leaf and Flower Development.
    Plant Cell, 2015. 27(7): p. 1889-906
    [PMID:26106148]
  4. Jégu T, et al.
    A SWI/SNF Chromatin Remodelling Protein Controls Cytokinin Production through the Regulation of Chromatin Architecture.
    PLoS ONE, 2015. 10(10): p. e0138276
    [PMID:26457678]
  5. Jégu T, et al.
    The Arabidopsis SWI/SNF protein BAF60 mediates seedling growth control by modulating DNA accessibility.
    Genome Biol., 2017. 18(1): p. 114
    [PMID:28619072]