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_scaffold00071.194
Common NameAMTR_s00071p00185920
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family C2H2
Protein Properties Length: 363aa    MW: 42501.6 Da    PI: 8.5585
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00071.194genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H217.11.6e-056080323
                                              ETTTTEEESSHHHHHHHHHHT CS
                                   zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                                              C+dCg +F+ + +Lk+H + H
  evm_27.model.AmTr_v1.0_scaffold00071.194 60 CEDCGACFRKPAYLKQHKQGH 80
                                              *****************9877 PP
2zf-C2H217.98.4e-0686110123
                                               EEET..TTTEEESSHHHHHHHHHHT CS
                                   zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                                               ++Cp   C+ s++rk++L+rH+ +H
  evm_27.model.AmTr_v1.0_scaffold00071.194  86 FTCPvdGCHSSYRRKDHLTRHLLKH 110
                                               89*********************99 PP
3zf-C2H2157.4e-05115139123
                                               EEET..TTTEEESSHHHHHHHHHHT CS
                                   zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                                               ++Cp  +C+  F+ + n krHi  H
  evm_27.model.AmTr_v1.0_scaffold00071.194 115 FECPvdNCNHKFTYQGNVKRHIEEH 139
                                               89********************995 PP
4zf-C2H216.72.1e-05155179123
                                               EEET..TTTEEESSHHHHHHHHHHT CS
                                   zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                                               ++C+   Cgk F+  s L++H  +H
  evm_27.model.AmTr_v1.0_scaffold00071.194 155 HVCQepECGKAFKYESKLRKHEESH 179
                                               689999***************9988 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM00355121336IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.7575885IPR007087Zinc finger, C2H2
SMARTSM003550.315880IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.609.1E-76084IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS0002806080IPR007087Zinc finger, C2H2
SuperFamilySSF576672.65E-971112No hitNo description
Gene3DG3DSA:3.30.160.601.3E-985112IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.002886110IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.24586115IPR007087Zinc finger, C2H2
PROSITE patternPS00028088110IPR007087Zinc finger, C2H2
SuperFamilySSF576677.17E-696145No hitNo description
Gene3DG3DSA:3.30.160.601.0E-5113142IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.51115145IPR007087Zinc finger, C2H2
SMARTSM003550.013115139IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280117140IPR007087Zinc finger, C2H2
SuperFamilySSF576672.24E-5152180No hitNo description
Gene3DG3DSA:3.30.160.607.9E-7154179IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.614155184IPR007087Zinc finger, C2H2
SMARTSM003550.065155179IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280157179IPR007087Zinc finger, C2H2
SMARTSM003553.4187212IPR015880Zinc finger, C2H2-like
PROSITE profilePS501578.891188212IPR007087Zinc finger, C2H2
PROSITE patternPS000280189212IPR007087Zinc finger, C2H2
SMARTSM0035522215236IPR015880Zinc finger, C2H2-like
SMARTSM003550.019245270IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.575245275IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.7E-4246271IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280247270IPR007087Zinc finger, C2H2
SuperFamilySSF576678.42E-7256300No hitNo description
SMARTSM003555.2276300IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.162276300IPR007087Zinc finger, C2H2
PROSITE patternPS000280278300IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005730Cellular Componentnucleolus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0008097Molecular Function5S rRNA binding
GO:0046872Molecular Functionmetal ion binding
GO:0080084Molecular Function5S rDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 363 aa     Download sequence    Send to blast
MEREVIFKDV RRYYCDICGI CRSKKPLIRS HMLSEHKDEV NEVEKDEEEI LENKRLKLAC  60
EDCGACFRKP AYLKQHKQGH SLERPFTCPV DGCHSSYRRK DHLTRHLLKH EGKFFECPVD  120
NCNHKFTYQG NVKRHIEEHH SKESPSCSGQ DPLPHVCQEP ECGKAFKYES KLRKHEESHV  180
KLDSVEVICC DPECMKHFTN IEALREHLKS NHRYVLCEVC GSRQLKKNMK RHLRTHDNKV  240
SIERIKCPVR GCCHIFTTIS NLKKHEKAVH LELRPFTCRE PHCGRKFPYK HVRDNHEKSH  300
VYIHDDFVEL DEQFRSRPKG GRKPLFSGIE SLLRKRVAPL SRASSLDNAS EYLSSLLSED  360
GR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tf6_A2e-165421411162PROTEIN (TRANSCRIPTION FACTOR IIIA)
1tf6_D2e-165421411162PROTEIN (TRANSCRIPTION FACTOR IIIA)
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1224230LKKNMKR
Functional Description ? help Back to Top
Source Description
UniProtEssential protein (PubMed:22353599). Isoform 1 is a transcription activator the binds both 5S rDNA and 5S rRNA and stimulates the transcription of 5S rRNA gene (PubMed:12711688, PubMed:22353599). Isoform 1 regulates 5S rRNA levels during development (PubMed:22353599). {ECO:0000269|PubMed:12711688, ECO:0000269|PubMed:22353599}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00229DAPTransfer from AT1G72050Download
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_020531805.10.0transcription factor IIIA isoform X2
SwissprotQ84MZ41e-114TF3A_ARATH; Transcription factor IIIA
TrEMBLU5DF320.0U5DF32_AMBTC; Uncharacterized protein
STRINGERN200470.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP29811627
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.21e-110transcription factor IIIA
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]