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 Sof015792
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: 194aa    MW: 21825.1 Da    PI: 10.0105
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PUT-157a-Saccharum_officinarum-29977PU_refplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH19.81.4e-066284225
               -S---SGGGGTS--TTTTT-SS-S CS
    zf-CCCH  2 ktelCrffartGtCkyGdrCkFaH 25
               k +lC+ff+  G C  G+ C F+H
  Sof015792 62 KKVLCKFFMH-GACLKGEYCEFSH 84
               789***8888.************* PP
2zf-CCCH29.61.2e-0993113526
                --SGGGGTS--TTTTT-SS-SS CS
    zf-CCCH   5 lCrffartGtCkyGdrCkFaHg 26 
                 C f+++ G C+yG+rC++ H+
  Sof015792  93 VCTFYQK-GACSYGSRCRYDHV 113
                5******.*************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF156632.7E-859118No hitNo description
PROSITE profilePS5010313.6196087IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.14E-76085IPR000571Zinc finger, CCCH-type
SMARTSM003561.3E-56086IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.102.2E-46288IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.27788115IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.83E-590112IPR000571Zinc finger, CCCH-type
SMARTSM003563.4E-490114IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.0E-493112IPR000571Zinc 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: 194 aa     Download sequence    Send to blast
XRCVKREERN LRKAHQFEAI PSPWRRGGKD SNQRRSLGDG AVTRLSGRAS LSDRFGWAMS  60
TKKVLCKFFM HGACLKGEYC EFSHNWSDQA NNVCTFYQKG ACSYGSRCRY DHVKVSRNPT  120
VPPPPPTSSA ARRVTSTSLQ LLSSSQPHTG HQTDSSNQRH QISVDVLAHS ASKPAWRNDF  180
QHDIVSDDGI DWSL
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_021305364.19e-79E3 ubiquitin-protein ligase makorin isoform X1
SwissprotQ5ZA072e-66C3H41_ORYSJ; E3 ubiquitin-protein ligase makorin
TrEMBLA0A194YIW92e-77A0A194YIW9_SORBI; Uncharacterized protein
STRINGSb10g012170.23e-78(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]