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 KN538979.1_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 BBR-BPC
Protein Properties Length: 571aa    MW: 62956.9 Da    PI: 10.5834
Description BBR-BPC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN538979.1_FGP004genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GAGA_bind396.82.9e-12126857115301
          GAGA_bind  15 epaaslkenlglqlmssiaerdakirernlalsekkaavaerdmaflqrdkalaernkalverdnkllalllvensla...salpvgvqvls 103
                        + +++lk++++++l++++++rd++irer++al+ekkaa+aerdmaf+qrd+a+aern+a+verdn+l+al+l++++     + +++ +++ls
  KN538979.1_FGP004 268 QTQRHLKDHQSMNLLALMNDRDNAIRERDHALAEKKAAIAERDMAFTQRDAAMAERNAAVVERDNALAALELARTNGLnmnNGNGFPQGSLS 359
                        44589*****************************************************************99888765566889999***** PP

          GAGA_bind 104 gtksidslqqlse.....pqledsave.lreeeklealpieeaaeeakekkkkkkrqrakkpkekkak..kkkkksekskkkvkkesader. 186
                        g+k+i++++qls+      ql+ds+++ +re++++ea+pi++a+ +a ++k++kk++++++p ++ +   +k+kk++ ++k+v ++++ ++ 
  KN538979.1_FGP004 360 GSKNIHHHDQLSHaqsspLQLADSPYDhTREMHISEAYPISTAPGSAGKAKRPKKNSSQASPSKRPSGvlRKTKKPSGDWKNVGMSGCGDDs 451
                        **********888899999********9***********************************9999988888889**********998555 PP

          GAGA_bind 187 .....skaekksidlvlngvslDestlPvPvCsCtGalrqCYkWGnGGWqSaCCtttiSvyPLPvstkrrgaRiagrKmSqgafkklLekLa 273
                             +k+e+k+++l+ln+v++Dest+P+P+CsCtG+lrqCYkWGnGGWqS+CCt++iS+yPLPv++++r+aR++grKmS+gaf+klL++La
  KN538979.1_FGP004 452 ahasvMKNEWKDQNLGLNQVAFDESTMPAPACSCTGKLRQCYKWGNGGWQSSCCTMNISMYPLPVMPNKRHARMGGRKMSGGAFTKLLSRLA 543
                        89999*************************************************************************************** PP

          GAGA_bind 274 aeGydlsnpvDLkdhWAkHGtnkfvtir 301
                        aeG+dls+pvDLkdhWAkHGtn+++tir
  KN538979.1_FGP004 544 AEGHDLSTPVDLKDHWAKHGTNRYITIR 571
                        ***************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF001251.3E-321102IPR007125Histone H2A/H2B/H3
Gene3DG3DSA:1.10.20.108.9E-582101IPR009072Histone-fold
SuperFamilySSF471137.18E-372102IPR009072Histone-fold
PRINTSPR006221.7E-55317IPR000164Histone H3/CENP-A
PROSITE patternPS0032201521IPR000164Histone H3/CENP-A
PRINTSPR006221.7E-551731IPR000164Histone H3/CENP-A
SMARTSM004286.8E-2934122IPR000164Histone H3/CENP-A
PRINTSPR006221.7E-553455IPR000164Histone H3/CENP-A
PRINTSPR006221.7E-555875IPR000164Histone H3/CENP-A
PROSITE patternPS0095906775IPR000164Histone H3/CENP-A
PRINTSPR006221.7E-558098IPR000164Histone H3/CENP-A
Gene3DG3DSA:1.10.10.102.2E-17148228IPR011991Winged helix-turn-helix DNA-binding domain
SuperFamilySSF467852.56E-15149228IPR011991Winged helix-turn-helix DNA-binding domain
CDDcd000731.77E-19149222No hitNo description
SMARTSM005264.6E-25149218IPR005818Linker histone H1/H5, domain H15
PROSITE profilePS5150424.096151223IPR005818Linker histone H1/H5, domain H15
PfamPF005381.0E-11152221IPR005818Linker histone H1/H5, domain H15
SMARTSM012263.4E-165253571IPR010409GAGA-binding transcriptional activator
PfamPF062172.1E-96255571IPR010409GAGA-binding transcriptional activator
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006334Biological Processnucleosome assembly
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009723Biological Processresponse to ethylene
GO:0000786Cellular Componentnucleosome
GO:0005730Cellular Componentnucleolus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0042803Molecular Functionprotein homodimerization activity
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 571 aa     Download sequence    Send to blast
MARTKQTARK STGGKAPRKQ LATKAARKSA PTTGGVKKPH RYRPGTVALR EIRKYQKSTE  60
LLIRKLPFQR LVREIAQDFK TDLRFQSHAV LALQEAAEAY LEVKEAVEAP KPEEAPKAAE  120
EVEEKKAEGE KEKAKKERKP RARKPRSAGP HHPPYFEMIK EAIMALDGNG KAGSSPYAIA  180
KYMGEQHMGV LPANYRKVLA VQLRNFAAKG RLVKVKASFK LSAAEEKKAT AASVGFGVPA  240
AIKPTEEKHA RWDDERVSAS ASMWMMPQTQ RHLKDHQSMN LLALMNDRDN AIRERDHALA  300
EKKAAIAERD MAFTQRDAAM AERNAAVVER DNALAALELA RTNGLNMNNG NGFPQGSLSG  360
SKNIHHHDQL SHAQSSPLQL ADSPYDHTRE MHISEAYPIS TAPGSAGKAK RPKKNSSQAS  420
PSKRPSGVLR KTKKPSGDWK NVGMSGCGDD SAHASVMKNE WKDQNLGLNQ VAFDESTMPA  480
PACSCTGKLR QCYKWGNGGW QSSCCTMNIS MYPLPVMPNK RHARMGGRKM SGGAFTKLLS  540
RLAAEGHDLS TPVDLKDHWA KHGTNRYITI R
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3lel_A3e-5911011101Histone H3.2
3lel_E3e-5911011101Histone H3.2
3lel_K3e-5911011101Histone H3.2
3lel_O3e-5911011101Histone H3.2
4zux_A3e-5911011101Histone H3.2
4zux_E3e-5911011101Histone H3.2
4zux_K3e-5911011101Histone H3.2
4zux_O3e-5911011101Histone H3.2
5b40_A3e-5911014104Histone H3.2
5b40_E3e-5911014104Histone H3.2
5e5a_A3e-5911011101Histone H3.2
5e5a_E3e-5911011101Histone H3.2
5o9g_A3e-5911011101Histone H3.2
5o9g_E3e-5911011101Histone H3.2
6i84_M3e-5911011101Histone H3.2
6i84_S3e-5911011101Histone H3.2
6j99_A3e-5911011101Histone H3
6j99_E3e-5911011101Histone H3
6ne3_A3e-5911011101Histone H3.2
6ne3_E3e-5911011101Histone H3.2
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional regulator that specifically binds to GA-rich elements (GAGA-repeats) present in regulatory sequences of genes involved in developmental processes. {ECO:0000250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00540DAPTransfer from AT5G42520Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapKN538979.1_FGP004
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankCP0126140.0CP012614.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 6 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015641153.10.0barley B recombinant-like protein D
RefseqXP_015641154.10.0barley B recombinant-like protein D
SwissprotQ5VSA80.0BBRD_ORYSJ; Barley B recombinant-like protein D
TrEMBLA0A0D3GCC30.0A0A0D3GCC3_9ORYZ; Uncharacterized protein
TrEMBLA0A0E0A4I00.0A0A0E0A4I0_9ORYZ; Uncharacterized protein
TrEMBLA0A0E0HKD40.0A0A0E0HKD4_ORYNI; Uncharacterized protein
TrEMBLI1PZ790.0I1PZ79_ORYGL; Uncharacterized protein
STRINGOGLUM06G01860.10.0(Oryza glumipatula)
STRINGONIVA06G02210.10.0(Oryza nivara)
STRINGORGLA06G0019100.10.0(Oryza glaberrima)
STRINGOBART06G01840.10.0(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP62263756
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G42520.19e-94basic pentacysteine 6
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]