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 Sof016639
Organism
Saccharum officinarum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Saccharinae; Saccharum; Saccharum officinarum complex
Family C3H
Protein Properties Length: 184aa    MW: 20317.8 Da    PI: 8.8343
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
gnl|UG|Sof#S17466879PU_refUnigeneView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.91.3e-06426225
               -S---SGGGGTS--TTTTT-SS-S CS
    zf-CCCH  2 ktelCrffartGtCkyGdrCkFaH 25
               k +lC+ff+  G C  G+ C F+H
  Sof016639  4 KKVLCKFFMH-GACLKGEYCEFSH 26
               789***8888.************* PP
2zf-CCCH29.71.1e-093555526
               --SGGGGTS--TTTTT-SS-SS CS
    zf-CCCH  5 lCrffartGtCkyGdrCkFaHg 26
                C f+++ G C+yG+rC++ H+
  Sof016639 35 VCTFYQK-GACSYGSRCRYDHV 55
               5******.*************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF156632.4E-8160No hitNo description
PROSITE profilePS5010313.619229IPR000571Zinc finger, CCCH-type
SMARTSM003561.3E-5228IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.57E-7327IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.8E-4430IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.2773057IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.7E-53254IPR000571Zinc finger, CCCH-type
SMARTSM003563.4E-43256IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.109.4E-53554IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 184 aa     Download sequence    Send to blast
MSTKKVLCKF FMHGACLKGE YCEFSHNWSD QANNVCTFYQ KGACSYGSRC RYDHVKVSRN  60
PTVPPPPPTS SAARRVTSTS LQLLSSSQPH TGHQTDSSNQ RHQISVDVLA HSASKPAGEI  120
DFNXDIVSDD GIDWALNRNL LKHNVIETLR VWLFGLLLLR GLALWGRGPS MPGDLVANLG  180
KNGF
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sof.22810.0callus| inflorescence| meristem| root| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in dry seeds. Increased expression throughout imbibition and germination and when radicle and shoots are emerging. Up-regulated during cell differentiation. {ECO:0000269|PubMed:17870591}.
UniprotTISSUE SPECIFICITY: Expressed in primary roots and leaves. Detected in vascular bundle tissues. {ECO:0000269|PubMed:17870591}.
Functional Description ? help Back to Top
Source Description
UniProtE3 ubiquitin ligase catalyzing the covalent attachment of ubiquitin moieties onto substrate proteins. {ECO:0000250}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021305364.18e-80E3 ubiquitin-protein ligase makorin isoform X1
RefseqXP_021305365.17e-80E3 ubiquitin-protein ligase makorin isoform X2
SwissprotQ5ZA075e-62C3H41_ORYSJ; E3 ubiquitin-protein ligase makorin
TrEMBLA0A194YIW92e-78A0A194YIW9_SORBI; Uncharacterized protein
STRINGSb10g012170.23e-79(Sorghum bicolor)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08505.28e-24C3H 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]