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 Bradi1g42720.2.p
Common NameBRADI_1g42720, LOC100840100
Organism
Brachypodium distachyon
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium
Family C3H
Protein Properties Length: 384aa    MW: 43408.3 Da    PI: 8.0511
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bradi1g42720.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH17.48.1e-06427226
                      -S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH  2 ktelCrffartGtCkyGdrCkFaHg 26
                      k++lC+ f+  G C  G+ C F+H+
  Bradi1g42720.2.p  4 KRVLCK-FFVHGACLKGEYCEFSHD 27
                      89****.7777*************5 PP
2zf-CCCH28.33.1e-093555526
                      --SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH  5 lCrffartGtCkyGdrCkFaHg 26
                       C f+++ G C+yG+rC++ H+
  Bradi1g42720.2.p 35 VCTFYQK-GSCSYGSRCRYDHV 55
                      5******.*************7 PP
3zf-CCCH18.34.1e-06165187326
                       S---SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH   3 telCrffartGtCkyGdrCkFaHg 26 
                       +++C+ fa+ G C+y + C+ +Hg
  Bradi1g42720.2.p 165 MPICS-FAAAGNCPYEEECPSMHG 187
                       68999.*****************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003565.8E-5228IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.901229IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.66E-7327IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.4833057IPR000571Zinc finger, CCCH-type
SMARTSM003565.2E-43256IPR000571Zinc finger, CCCH-type
SuperFamilySSF902296.02E-53254IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.4E-43554IPR000571Zinc finger, CCCH-type
PfamPF006421.1E-63555IPR000571Zinc finger, CCCH-type
SMARTSM003560.17162188IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.075162189IPR000571Zinc finger, CCCH-type
SuperFamilySSF578509.94E-12219295No hitNo description
Gene3DG3DSA:3.30.40.101.1E-9224290IPR013083Zinc finger, RING/FYVE/PHD-type
CDDcd001620.00113230290No hitNo description
PfamPF136393.7E-7230289IPR001841Zinc finger, RING-type
SMARTSM001842.9E-7231288IPR001841Zinc finger, RING-type
PROSITE profilePS5008912.297231289IPR001841Zinc finger, RING-type
PROSITE patternPS005180255264IPR017907Zinc finger, RING-type, conserved site
SMARTSM003560.01318346IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.648318347IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 384 aa     Download sequence    Send to blast
MSTKRVLCKF FVHGACLKGE YCEFSHDWRD QANNVCTFYQ KGSCSYGSRC RYDHVKVSHN  60
NPVPPPPSSS TPTRNSSLPL PPSSTVARVV STSLQPTSAG RPVHIGHQTN PSNQRQQISM  120
DMLAHSESKP AWRNDFQLDS VSEDGIDWSS NRTVQNQTSK KLADMPICSF AAAGNCPYEE  180
ECPSMHGDLC TTCGKMCLHP YRPDEREEHM KLCEKNHKRI EALKRSQEIE CSVCLDRVLS  240
KPTAAERKFG LLSECDHPFC ISCIRNWRGN SPTSGMDVNS ALRACPICRK LSYYVIPSVL  300
WYFSKEEKME IIDNYKSKLK SIDCKYFDFG TGTCPFGTSC FYKHAYRDGR LEEVILRHLD  360
AEDGTTLIAK NIRLSDFLTR LHL*
Functional Description ? help Back to Top
Source Description
UniProtE3 ubiquitin ligase catalyzing the covalent attachment of ubiquitin moieties onto substrate proteins. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapBradi1g42720.2.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2481880.0AK248188.1 Hordeum vulgare subsp. vulgare cDNA clone: FLbaf156g01, mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003563906.10.0E3 ubiquitin-protein ligase makorin isoform X1
RefseqXP_010227725.10.0E3 ubiquitin-protein ligase makorin isoform X1
SwissprotQ5ZA070.0C3H41_ORYSJ; E3 ubiquitin-protein ligase makorin
TrEMBLI1GYR50.0I1GYR5_BRADI; Uncharacterized protein
STRINGBRADI1G42720.20.0(Brachypodium distachyon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP53263356
Representative plantOGRP40671523
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08505.21e-137C3H family protein
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]
  2. Sahi VP, et al.
    A molecular insight into Darwin's "plant brain hypothesis" through expression pattern study of the MKRN gene in plant embryo compared with mouse embryo.
    Plant Signal Behav, 2012. 7(3): p. 375-81
    [PMID:22499205]
  3. Wadekar HB,Sahi VP,Morita EH,Abe S
    MKRN expression pattern during embryonic and post-embryonic organogenesis in rice (Oryza sativa L. var. Nipponbare).
    Planta, 2013. 237(4): p. 1083-95
    [PMID:23262670]