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_scaffold00147.1
Common NameAMTR_s00147p00005450
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: 354aa    MW: 38759.1 Da    PI: 7.8237
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00147.1genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH50.24.3e-16277302126
                                             --S---SGGGGTS--TTTTT-SS-SS CS
                                 zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                                             +ktelC+ +++tG C+yGdrC+FaHg
  evm_27.model.AmTr_v1.0_scaffold00147.1 277 FKTELCNKWQETGACPYGDRCQFAHG 302
                                             79***********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.104.1E-20271309IPR000571Zinc finger, CCCH-type
SuperFamilySSF902291.96E-11273308IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.596276304IPR000571Zinc finger, CCCH-type
SMARTSM003561.2E-9276303IPR000571Zinc finger, CCCH-type
PfamPF006424.5E-13277302IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.6E-11310340IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.06E-8311340IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.141314342IPR000571Zinc finger, CCCH-type
SMARTSM003561.6E-4314341IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 354 aa     Download sequence    Send to blast
MYASNSTFEP SLSVSNPFHL DRRTPSPTPH HFNTNNNEPT MFDPYSLDDE LALMNHHSTS  60
PTHPLASSTS WLDEQAGSSR ARTIRDIAER YGISLGRTTE PTRQVGSTDH LRSDYARLRA  120
ENARLKAANA DLARRLSLLA LGSRTESEHL SCGLSALSMV GDFRRLGVGD GGGTRVGSVP  180
VATDEADETS PTSVLSFEGN GNGGIEKRGV PKSISIRSSG YLKVNQVNGG VRSPNKPNRF  240
RVATPVAETR VCVKEKGATG EEEGVEVEVE VYNQGMFKTE LCNKWQETGA CPYGDRCQFA  300
HGIEELRPVI RHPRYKTEIC RMILTGDKCP YGHRCHFRHA LSPNETFGAR PSS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1rgo_A1e-21277339466Butyrate response factor 2
Search in ModeBase
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00383ampDAPTransfer from AT1G68200Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006842660.30.0zinc finger CCCH domain-containing protein 15
SwissprotQ6L5G14e-60C3H39_ORYSJ; Zinc finger CCCH domain-containing protein 39
TrEMBLW1PBD00.0W1PBD0_AMBTC; Uncharacterized protein
STRINGERN043350.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP20581636
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G68200.27e-55C3H 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. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  3. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]