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 evm_27.model.AmTr_v1.0_scaffold00022.350
Common NameAMTR_s00022p00241860
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family C3H
Protein Properties Length: 355aa    MW: 40525.1 Da    PI: 7.8801
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00022.350genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH29.99.5e-103858526
                                              --SGGGGTS--TTTTT-SS-SS CS
                                   zf-CCCH  5 lCrffartGtCkyGdrCkFaHg 26
                                              +C f+++ G+C+yG+rC++ H+
  evm_27.model.AmTr_v1.0_scaffold00022.350 38 ICTFYQK-GICSYGSRCRYDHV 58
                                              7******.*************7 PP
2zf-CCCH17.29.5e-06137158426
                                               ---SGGGGTS--TTTTT-SS-SS CS
                                   zf-CCCH   4 elCrffartGtCkyGdrCkFaHg 26 
                                               ++C  fa+ G C++G++C+ +Hg
  evm_27.model.AmTr_v1.0_scaffold00022.350 137 PICA-FAAAGKCPHGEKCSHIHG 158
                                               7788.**************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010313.845532IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.07E-7530IPR000571Zinc finger, CCCH-type
SMARTSM003566.2E-4531IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.6153360IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.49E-53457IPR000571Zinc finger, CCCH-type
SMARTSM003561.4E-43459IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.1E-43857IPR000571Zinc finger, CCCH-type
PfamPF006424.5E-73858IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010311.807133160IPR000571Zinc finger, CCCH-type
SMARTSM003560.097134159IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.106.4E-4139158IPR000571Zinc finger, CCCH-type
SuperFamilySSF578506.56E-10197268No hitNo description
Gene3DG3DSA:3.30.40.107.6E-10197261IPR013083Zinc finger, RING/FYVE/PHD-type
CDDcd001626.35E-4201261No hitNo description
SMARTSM001844.9E-7202259IPR001841Zinc finger, RING-type
PROSITE profilePS5008912.253202260IPR001841Zinc finger, RING-type
PfamPF000974.4E-7202259IPR018957Zinc finger, C3HC4 RING-type
PROSITE patternPS005180226235IPR017907Zinc finger, RING-type, conserved site
SMARTSM003560.13289317IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.563289318IPR000571Zinc 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: 355 aa     Download sequence    Send to blast
MEGIEKMMVL CKFFLHGACL KGEHCEFSHD WRDQPNNICT FYQKGICSYG SRCRYDHVKA  60
SHPQKHSSTS SNSYQQSTLV STPVAPGTPR TRSYIPELSA HSKPFYPVVR PSWNEVPDTS  120
YIPDREYHQS LSLADQPICA FAAAGKCPHG EKCSHIHGDL CASCGKHCLH PYRPDEREEH  180
IQMCQKNQMR LEALRRSQEI ECSVCLERVL SKPTPAERKF GLLSECDHPF CISCIRNWRN  240
NSPMSGMDVN SVLRACPICR KLSYFVIPSV IWYSTKEEKQ EIIDSYKSKL SSIDCRYFDF  300
GQGTCPFGTS CFYKHAYRDG TLEEVRLRHL GAEDGNTVIA KDIRLSDFFR ILHL*
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_011625473.10.0E3 ubiquitin-protein ligase makorin
RefseqXP_011625474.10.0E3 ubiquitin-protein ligase makorin
SwissprotQ5ZA071e-170C3H41_ORYSJ; E3 ubiquitin-protein ligase makorin
TrEMBLW1PVM90.0W1PVM9_AMBTC; Uncharacterized protein
STRINGERN117510.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP40671523
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08505.21e-148C3H 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]
  4. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]