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 PSME_00032743-RA
Organism
Pseudotsuga menziesii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga
Family C3H
Protein Properties Length: 383aa    MW: 42541.5 Da    PI: 8.3622
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PSME_00032743-RAgenomePRSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH28.33.1e-095676526
                      --SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH  5 lCrffartGtCkyGdrCkFaHg 26
                       C f++r G C+yG+rC++ H+
  PSME_00032743-RA 56 VCTFYQR-GVCSYGSRCRYDHV 76
                      5999999.*************7 PP
2zf-CCCH20.49.3e-07167187526
                       --SGGGGTS--TTTTT-SS-SS CS
           zf-CCCH   5 lCrffartGtCkyGdrCkFaHg 26 
                       +C  fa+ G C++Gd+C+  Hg
  PSME_00032743-RA 167 ICA-FAAAGKCPRGDTCPQLHG 187
                       677.*****************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.0652350IPR000571Zinc finger, CCCH-type
SMARTSM003561.1E-42449IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.57E-62648IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.0515178IPR000571Zinc finger, CCCH-type
SMARTSM003567.5E-45377IPR000571Zinc finger, CCCH-type
SuperFamilySSF902293.92E-55375IPR000571Zinc finger, CCCH-type
PfamPF006421.2E-65676IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.3E-45675IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.361162189IPR000571Zinc finger, CCCH-type
SMARTSM003560.0052163188IPR000571Zinc finger, CCCH-type
SuperFamilySSF578508.7E-11217295No hitNo description
Gene3DG3DSA:3.30.40.103.1E-9227297IPR013083Zinc finger, RING/FYVE/PHD-type
CDDcd001620.00268230291No hitNo description
PfamPF000979.0E-7231288IPR018957Zinc finger, C3HC4 RING-type
SMARTSM001845.9E-6231288IPR001841Zinc finger, RING-type
PROSITE profilePS5008912.061231289IPR001841Zinc finger, RING-type
PROSITE patternPS005180255264IPR017907Zinc finger, RING-type, conserved site
PROSITE profilePS5010313.497318347IPR000571Zinc finger, CCCH-type
SMARTSM003560.069318346IPR000571Zinc 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: 383 aa     Download sequence    Send to blast
PYRKKLVGQS GSVQVCCLTV FSISDRVLCR YFVHGACLKG ELCEFSHDWK DQANNVCTFY  60
QRGVCSYGSR CRYDHVKVSR PENTFSLSPR SHLGSEVEPK SAAVHGGVTV GNDTSVIWHT  120
GELSGSSKPF FPSLGQVWTA GSQDVSSTSR TELETKSSVS DAADLPICAF AAAGKCPRGD  180
TCPQLHGDVC ATCGKHCLHP YRLAEREEHI KQCQRNQKRL EALRRSQEIE CSVCLETVLS  240
KSTPAERKFG LMSACDHPFC ISCIRNWRGN NPVPGMDVNS VLRACPMCRI PSHFVIPSVI  300
WYSNPEEKKE IIENYKKKLS SIDCKYFDFG KGTCPFGTSC FYKHAYKDGR REEVKLRHLG  360
AADGSTVIAK DVRLSDFLGR LGL
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_011625473.11e-173E3 ubiquitin-protein ligase makorin
RefseqXP_011625474.11e-173E3 ubiquitin-protein ligase makorin
SwissprotQ5ZA071e-159C3H41_ORYSJ; E3 ubiquitin-protein ligase makorin
TrEMBLA0A0D6R3J60.0A0A0D6R3J6_ARACU; Uncharacterized protein
STRINGERN117511e-170(Amborella trichopoda)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08505.21e-135C3H 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]