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 Pp3c5_25680V3.5.p
Organism
Physcomitrella patens
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Bryophyta; Bryophytina; Bryopsida; Funariidae; Funariales; Funariaceae; Physcomitrella
Family C3H
Protein Properties Length: 333aa    MW: 36755.2 Da    PI: 7.7875
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pp3c5_25680V3.5.pgenomeCOSMOSSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH20.11.1e-06728325
                       S---SGGGGTS--TTTTT-SS-S CS
            zf-CCCH  3 telCrffartGtCkyGdrCkFaH 25
                       ++lC+ff+  G C  G  C+F+H
  Pp3c5_25680V3.5.p  7 RVLCKFFMH-GACLKGVDCQFSH 28
                       78***8888.************* PP
2zf-CCCH24.54.5e-083757526
                       --SGGGGTS--TTTTT-SS-SS CS
            zf-CCCH  5 lCrffartGtCkyGdrCkFaHg 26
                        C f++r G C+yG+rC++ H+
  Pp3c5_25680V3.5.p 37 VCTFYQR-GLCSYGARCRYEHV 57
                       69*9999.***********997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.723431IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.22E-6529IPR000571Zinc finger, CCCH-type
SMARTSM003561.3E-5530IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.107.3E-4932IPR000571Zinc finger, CCCH-type
SMARTSM003562.1E-53258IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.7653259IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.23E-53356IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.108.1E-43656IPR000571Zinc finger, CCCH-type
PfamPF006421.0E-53757IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010312.878137164IPR000571Zinc finger, CCCH-type
SMARTSM003569.8E-4138163IPR000571Zinc finger, CCCH-type
SuperFamilySSF578501.65E-10192270No hitNo description
Gene3DG3DSA:3.30.40.108.1E-10200268IPR013083Zinc finger, RING/FYVE/PHD-type
CDDcd001624.27E-4205267No hitNo description
SMARTSM001843.0E-6206263IPR001841Zinc finger, RING-type
PfamPF000973.0E-5206263IPR018957Zinc finger, C3HC4 RING-type
PROSITE profilePS5008911.634206264IPR001841Zinc finger, RING-type
PROSITE patternPS005180230239IPR017907Zinc finger, RING-type, conserved site
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: 333 aa     Download sequence    Send to blast
MMEGRSRVLC KFFMHGACLK GVDCQFSHNW SDQSSQVCTF YQRGLCSYGA RCRYEHVKVS  60
RLTQPLATPV PVPRHLPAAI SLTSTVDSSS RATVIAKPSL AHLKDAWQQN STESLANGVS  120
AISLGEADEP EALSNDPSDR PICAFAAAGN CPLGESCRNI HGDLCTTCGK HCLHPYRPLD  180
RENHKIQCER NKKNLEALLK SQDIECSICL ERVLSKPTVA ERKFGLMSGC DHPFCVGCIR  240
GWRSGSHAPG MDIDTVVRAC PVCRVPTHYV VPSVVWYFSP EEKEEIINGY KNKLGLQIED  300
VKFEVNVILC IIWILRRSVS EGSIDMSSKS IV*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Ppa.184850.0protonema
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}.
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_024375822.10.0E3 ubiquitin-protein ligase makorin-like isoform X2
SwissprotQ5ZA071e-110C3H41_ORYSJ; E3 ubiquitin-protein ligase makorin
TrEMBLA0A2K1KL260.0A0A2K1KL26_PHYPA; Uncharacterized protein
STRINGPP1S154_11V6.10.0(Physcomitrella patens)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08505.23e-99C3H 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]