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 Spipo12G0033800
Organism
Spirodela polyrhiza
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Alismatales; Araceae; Lemnoideae; Spirodela
Family C3H
Protein Properties Length: 345aa    MW: 38335.2 Da    PI: 8.0576
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Spipo12G0033800genomeMIPS/IBISView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH20.11.1e-06526426
                     ---SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH  4 elCrffartGtCkyGdrCkFaHg 26
                     +lC+ffa  G C  Gd+C F+H+
  Spipo12G0033800  5 VLCKFFAH-GACLKGDNCEFSHD 26
                     79**6666.*************5 PP
2zf-CCCH29.51.3e-093454526
                     --SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH  5 lCrffartGtCkyGdrCkFaHg 26
                     +C f+++ G C+yG+rC++ H+
  Spipo12G0033800 34 ICTFYQK-GACSYGSRCRYDHV 54
                     7******.*************7 PP
3zf-CCCH20.48.8e-07134155426
                      ---SGGGGTS--TTTTT-SS-SS CS
          zf-CCCH   4 elCrffartGtCkyGdrCkFaHg 26 
                      ++C+ fa+ G+C++Gd+C+  Hg
  Spipo12G0033800 134 PICS-FAAAGYCPHGDKCPHLHG 155
                      7899.*************98887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003568.1E-7127IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.774128IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.44E-7426IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.6E-4626IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010315.0092956IPR000571Zinc finger, CCCH-type
SMARTSM003561.9E-43155IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.92E-53253IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.7E-43453IPR000571Zinc finger, CCCH-type
PfamPF006426.9E-73454IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.394130157IPR000571Zinc finger, CCCH-type
SMARTSM003565.3E-5131156IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.2E-4136155IPR000571Zinc finger, CCCH-type
SuperFamilySSF578503.24E-10185263No hitNo description
Gene3DG3DSA:3.30.40.103.9E-10193258IPR013083Zinc finger, RING/FYVE/PHD-type
PfamPF136393.2E-7198257IPR001841Zinc finger, RING-type
CDDcd001625.70E-4198258No hitNo description
SMARTSM001843.3E-7199256IPR001841Zinc finger, RING-type
PROSITE profilePS5008912.386199257IPR001841Zinc finger, RING-type
PROSITE patternPS005180223232IPR017907Zinc finger, RING-type, conserved site
PROSITE profilePS5010313.394286315IPR000571Zinc finger, CCCH-type
SMARTSM003560.096286314IPR000571Zinc 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: 345 aa     Download sequence    Send to blast
SSRIVLCKFF AHGACLKGDN CEFSHDWRQP SNNICTFYQK GACSYGSRCR YDHVKASRQA  60
SVSSSPNSSS RAAHPNGTPL GKEPTATQNH LPGAASSSRS LTSVVKPVWA QGAHGFSSNE  120
NISHLVAVDP AEKPICSFAA AGYCPHGDKC PHLHGDLCYI CGRNCLHPHR PDEREEHMRM  180
CQQNSKHLEA LRRSQEIECS VCLERVLSKP APAERKFGLL SECDHPFCVS CIRNWRSSSP  240
SSGMDVNSAL RACPICRKLS YFVVPSVIWY SSKEEKQEIV DGYKDKLRSI DCKYFDFGNG  300
SCPFGTSCFY KHAYRDGSLE EVALRHLDTD DGKTVIAKDI RLSEF
Functional Description ? help Back to Top
Source Description
UniProtE3 ubiquitin ligase catalyzing the covalent attachment of ubiquitin moieties onto substrate proteins. {ECO:0000250}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020267781.11e-177E3 ubiquitin-protein ligase makorin
RefseqXP_020267782.11e-177E3 ubiquitin-protein ligase makorin
RefseqXP_020267783.11e-177E3 ubiquitin-protein ligase makorin
RefseqXP_020267784.11e-177E3 ubiquitin-protein ligase makorin
SwissprotQ5ZA071e-164C3H41_ORYSJ; E3 ubiquitin-protein ligase makorin
TrEMBLA0A1D1XFT40.0A0A1D1XFT4_9ARAE; E3 ubiquitin-protein ligase makorin (Fragment)
STRINGERN117511e-174(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP53263356
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08505.21e-151C3H 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]