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_scaffold00077.93
Common NameAMTR_s00077p00108560, LOC18432339
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: 323aa    MW: 36885.1 Da    PI: 6.9269
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00077.93genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH36.58.4e-12185210126
                                              --S---SGGGGTS--TTTTT-SS-SS CS
                                  zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                                              y   +C+++ +tG+C +Gd CkF+H+
  evm_27.model.AmTr_v1.0_scaffold00077.93 185 YQPDICKDYKETGYCGFGDACKFMHD 210
                                              67789********************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF902295.76E-9183215IPR000571Zinc finger, CCCH-type
SMARTSM003563.5E-7184211IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.577184212IPR000571Zinc finger, CCCH-type
PfamPF006421.3E-9185210IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.1E-11185215IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.30.40.101.0E-11252310IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF578505.08E-12262305No hitNo description
PfamPF139201.6E-7262303No hitNo description
CDDcd001621.86E-6263304No hitNo description
SMARTSM001848.4E-4263300IPR001841Zinc finger, RING-type
PROSITE profilePS5008910.188263301IPR001841Zinc finger, RING-type
PROSITE patternPS005180278287IPR017907Zinc 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: 323 aa     Download sequence    Send to blast
MADSSDPMPT EPVCSFFRKP TKNKNIRKRN LEENDSEGED ESPSVSLNHK VPKKPDNKLF  60
FSTVGPSRVP SETLEQAPSS KATVFHFESS KEIQVEHDSR ATATLETETD FSNDARAIRE  120
RILKQEEERL RGNKRDEKLY QGIHGYTDYK AGFRREHTVA SEKAGGAHGP LRAPVNYRAS  180
ARFDYQPDIC KDYKETGYCG FGDACKFMHD RGDYKSGWQM EREWEEAEKE RKRRLAMGGG  240
DDETGGRDGH ESDDEDDSLP FACFICRERF KEPVVTKCKH YFCACCAIEH HKKNKKCFVC  300
DKPTLGIFNT AHEIKKKMAE EK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5z56_M2e-6498318113317RING finger protein 113A
5z58_M2e-6498318113317RING finger protein 113A
6ff4_t2e-6498318113317RING finger protein 113A
6ff7_t2e-6498318113317RING finger protein 113A
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1229234ERKRRL
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_011622668.10.0zinc finger CCCH domain-containing protein 1
SwissprotQ8GX841e-146C3H1_ARATH; Zinc finger CCCH domain-containing protein 1
TrEMBLW1P9C40.0W1P9C4_AMBTC; Uncharacterized protein
STRINGERN041860.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP58961720
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G01350.11e-137C3H family protein
Publications ? help Back to Top
  1. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]