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 Bradi3g53502.2.p
Common NameBRADI_3g53502, LOC100840927
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: 368aa    MW: 40846.1 Da    PI: 7.5897
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bradi3g53502.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH17.19.9e-063554626
                      -SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH  6 CrffartGtCkyGdrCkFaHg 26
                      C  f+++G C+yG+ C++ H+
  Bradi3g53502.2.p 35 CA-FYQNGVCSYGSHCRYEHV 54
                      66.5566***********997 PP
2zf-CCCH18.53.5e-061431581126
                       GTS--TTTTT-SS-SS CS
           zf-CCCH  11 rtGtCkyGdrCkFaHg 26 
                       + GtC+yG+ C+ +Hg
  Bradi3g53502.2.p 143 AAGTCPYGEECPQMHG 158
                       67*************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.122128IPR000571Zinc finger, CCCH-type
SMARTSM003568.8E-4227IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.06E-6426IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.612956IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.09E-53053IPR000571Zinc finger, CCCH-type
SMARTSM003567.0E-43155IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.122133160IPR000571Zinc finger, CCCH-type
SMARTSM003562.9134159IPR000571Zinc finger, CCCH-type
SuperFamilySSF578502.94E-12186266No hitNo description
Gene3DG3DSA:3.30.40.101.9E-10195261IPR013083Zinc finger, RING/FYVE/PHD-type
CDDcd001620.00598201262No hitNo description
PROSITE profilePS5008912.076202260IPR001841Zinc finger, RING-type
SMARTSM001849.3E-6202259IPR001841Zinc finger, RING-type
PfamPF000971.9E-6202259IPR018957Zinc finger, C3HC4 RING-type
PROSITE patternPS005180226235IPR017907Zinc finger, RING-type, conserved site
SMARTSM003560.052289317IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.324289318IPR000571Zinc 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: 368 aa     Download sequence    Send to blast
MSNRSACKFF VHGACFKGDY CQFSHDWNDQ SNNVCAFYQN GVCSYGSHCR YEHVEVSYEH  60
PPPTAAVAAS NSYQILSSSG CRICEEDRIV VSNQIQQTCK SASALSAHQP DRREDNNSVP  120
PRRTTQDQAS LPPAHLPMCS SAAAGTCPYG EECPQMHGNL CTTCGKQCLH PYRPSESGVH  180
IKLCKRNNKW LETLKKSEEI ECSVCLDCVL SKSTAAEKRF GLLPECDHAF CITCIRKWRS  240
SSLTSSMDID STVKACPICR KVSYYVIPSS TWYSSKEEKQ EIIDGYKAKL KSIDCKYFDF  300
GRDTCPFGGR CFYKHAYSDG RLEEVVPVAP ALPPPRLHFH ADDGSREHIC ILAQSVTSVG  360
KASIHIS*
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
PlantRegMapBradi3g53502.2.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
GenBankAK3631870.0AK363187.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, partial cds, clone: NIASHv2013F15.
GenBankAK3720370.0AK372037.1 Hordeum vulgare subsp. vulgare mRNA for predicted protein, complete cds, clone: NIASHv2145F18.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010235892.10.0E3 ubiquitin-protein ligase makorin isoform X1
SwissprotQ5ZA071e-142C3H41_ORYSJ; E3 ubiquitin-protein ligase makorin
TrEMBLI1ID940.0I1ID94_BRADI; Uncharacterized protein
STRINGBRADI3G53502.20.0(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-110C3H 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]