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 OB04G17410.1
Organism
Oryza brachyantha
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: 699aa    MW: 78043.4 Da    PI: 8.1109
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
OB04G17410.1genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH31.14.2e-10122166655
                   HHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
           HLH   6 nerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                      Er+RR r+++++ eLr l+P+      +K++Ka+i   Av Y+k+Lq
  OB04G17410.1 122 IVSERKRRVRMKEKLYELRALVPNI-----TKMDKASIIADAVVYVKDLQ 166
                   568*********************7.....7******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF474591.05E-14108178IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000833.96E-11114167No hitNo description
PROSITE profilePS5088815.294116165IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.103.9E-14118178IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003538.2E-12122171IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000102.3E-7122166IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF475921.13E-26470560IPR003121SWIB/MDM2 domain
Gene3DG3DSA:1.10.245.105.5E-30470561IPR003121SWIB/MDM2 domain
SMARTSM001513.7E-22476555IPR019835SWIB domain
PfamPF022014.4E-23479550IPR003121SWIB/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: 699 aa     Download sequence    Send to blast
MEHHHLLQLS SPPPPPPAHL TMSPGFFDVG VAGSGDWVEE LMRLGELFGV GVGGGEDGGG  60
NAAAVVEDQV LCVWQECEGG GSPEQPSCGG EVSAPCGGEV ACRDNDGENS ATRKRRDRSK  120
TIVSERKRRV RMKEKLYELR ALVPNITKMD KASIIADAVV YVKDLQAHAR KLREEVESST  180
LGCSPDRVVS TLTFKVASEA EDDAAAISEC TGKLGVMAAL LKEGFRPQPT QLVVSIWIGA  240
NLYQIHVLAI KDDSEWHYIW DNASYKSKRV YDLHFEHFQA EVPLVLIWES KRTMKYKVSL  300
WNKKRKLPEK QLPDRVAALL PESALYTQLL EFEARVDAAL HRKKVDIQEA LKTPPALQRT  360
LRIYVFNTFA NQAPRTIPPP KNAEPPTWSL KIIGRVLEDG AELDPASVVP KHNPVYPKFS  420
SFFKRVTIAL DPSLYPENPL IIWENARSAA PQEGFEVKRK GDKEFSANIR LEMNYSPEKF  480
KLSQPLMEVL GVEVDTRARV IAALWQYIKA KKLQNPTDPS FFMCDPQLKK VFGEDKMRFA  540
MLSQKISQHL SPPPPINLEH KIKLSGNGAH ASACYDVLVD VPFPLQKEMS TFLANTEKHK  600
DIEACDEVIS ASIKKIHEHR RRRAFFLGFS QSPVEFINAL IASQSKDLKL VAGEANRNIE  660
RERRADFYNQ PWVEDAVIRY LNRKPASGNE GPGGGAGGS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1v31_A2e-31477550982hypothetical protein RAFL11-05-P19
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1113128KRRDRSKTIVSERKRR
2290306KRTMKYKVSLWNKKRKL
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
PlantRegMapOB04G17410.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL6629770.0AL662977.3 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBa0072D21, complete sequence.
GenBankAP0149600.0AP014960.1 Oryza sativa Japonica Group DNA, chromosome 4, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006653323.10.0PREDICTED: SWI/SNF complex component SNF12 homolog, partial
SwissprotQ9FMT40.0SNF12_ARATH; SWI/SNF complex component SNF12 homolog
TrEMBLJ3LX660.0J3LX66_ORYBR; Uncharacterized protein
STRINGOB04G17410.10.0(Oryza brachyantha)
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
AT2G28160.15e-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]