PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Potri.019G081100.1
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family C2H2
Protein Properties Length: 379aa    MW: 43877.1 Da    PI: 8.4275
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.019G081100.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H221.56.2e-076889223
                        EETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2  2 kCpdCgksFsrksnLkrHirtH 23
                        +C++Cg sF+ + +L++H+++H
  Potri.019G081100.1 68 TCEKCGASFKKPAYLVQHMQSH 89
                        6*******************99 PP
2zf-C2H213.80.0001795119123
                         EEET..TTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                         + C+  dC+ s++rk++L+rH+  H
  Potri.019G081100.1  95 FMCSvdDCHASYRRKDHLTRHLLHH 119
                         789999***************9987 PP
3zf-C2H219.72.2e-06124149123
                         EEET..TTTEEESSHHHHHHHHHH.T CS
             zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                         +kC+  +C++ F   snLkrH r  H
  Potri.019G081100.1 124 FKCEieNCDRKFVYLSNLKRHVRElH 149
                         89*********************988 PP
4zf-C2H220.21.6e-06164188123
                         EEET..TTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                         y+C+   Cgk F+ +s L++H  +H
  Potri.019G081100.1 164 YVCQelGCGKAFRYPSKLQKHEDSH 188
                         99*******************9888 PP
5zf-C2H214.10.00014256280223
                         EET..TTTEEESSHHHHHHHHHH.T CS
             zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                         kC+   C   Fs+k nL++H +  H
  Potri.019G081100.1 256 KCHfkGCQHAFSTKTNLNQHVKAvH 280
                         7*******************99877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS501578.8292350IPR007087Zinc finger, C2H2
SMARTSM00355242345IPR015880Zinc finger, C2H2-like
SMARTSM003550.0076789IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015713.0696794IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.7E-66888IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS0002806989IPR007087Zinc finger, C2H2
SuperFamilySSF576677.81E-1175128No hitNo description
Gene3DG3DSA:3.30.160.609.6E-1189121IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.51595124IPR007087Zinc finger, C2H2
SMARTSM003550.1795119IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028097119IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.9E-6122150IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.72E-8122188No hitNo description
PROSITE profilePS5015711.448124154IPR007087Zinc finger, C2H2
SMARTSM003550.0019124149IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280126149IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.8E-8160188IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.448164193IPR007087Zinc finger, C2H2
SMARTSM003550.0032164188IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280166188IPR007087Zinc finger, C2H2
SMARTSM003553.6196221IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280198221IPR007087Zinc finger, C2H2
SMARTSM0035575224245IPR015880Zinc finger, C2H2-like
SuperFamilySSF576672.64E-7239292No hitNo description
SMARTSM003550.0029255280IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.967255285IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.1E-5256281IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280257280IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.603.1E-5282308IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003553286312IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280288312IPR007087Zinc 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: 379 aa     Download sequence    Send to blast
MVMMEEEAAE KGRAVIFRDI RRYYCDYCGI CRSKKSLITS HVLTHHEEEI EKERVGGDEV  60
KEGVRSNTCE KCGASFKKPA YLVQHMQSHS LERPFMCSVD DCHASYRRKD HLTRHLLHHE  120
GKLFKCEIEN CDRKFVYLSN LKRHVRELHD ESSSSSSVGG EKQYVCQELG CGKAFRYPSK  180
LQKHEDSHIN LDSMEAMCIE PGCMKHFSNK KCLKAHIQSC HQYINCDICG TKQLRKNIKR  240
HLCTHEPVNG STERIKCHFK GCQHAFSTKT NLNQHVKAVH LEQRPYVCGF PGCDMRFSYK  300
HVRDKHEKSG LHVYTPGDFV ESDQQFRSRP RGGRKRKFPT VEMLIRKRVT PPTEFDECHT  360
LLHEMEAEDP VVSHALPT*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tf6_A6e-167221620155PROTEIN (TRANSCRIPTION FACTOR IIIA)
1tf6_D6e-167221620155PROTEIN (TRANSCRIPTION FACTOR IIIA)
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1328336RPRGGRKRK
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Both isoforms 1 and 2 transcripts are expressed in seedlings and both TFIIIA and TFIIIA-C are present at similar ratios in 10-day-old seedlings (at protein level). In correlation with the reorganization of 5S rDNA chromatin to a mature state, full-length isoform 1 protein TFIIIA with transcriptional activity accumulates and permits de novo transcription of 5S rRNA. Isoforms 1 and 2 transcripts accumulate in various tissues of the reproductive phase, including flowers and siliques, but only isoform 2 is present in mature seeds. In flowers, both TFIIIA and TFIIIA-C are present at similar ratios (at protein level). Very low amounts of TFIIIA are found in extracts from fresh siliques compared to TFIIIA-C. The amount of full-length TFIIIA protein progressively increases from fresh siliques to seeds concomitant with lower proportions of the shorter TFIIIA-C protein (at protein level) thus leading to 5S rRNA accumulation in the seed. {ECO:0000269|PubMed:22353599}.
UniprotTISSUE SPECIFICITY: Expressed in seedlings, flowers, siliques and seeds. {ECO:0000269|PubMed:22353599}.
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
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.019G081100.1
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_024446707.10.0transcription factor IIIA
SwissprotQ84MZ41e-144TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A2K1WRF60.0A0A2K1WRF6_POPTR; Uncharacterized protein
STRINGPOPTR_0013s11300.10.0(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF30693370
Representative plantOGRP29811627
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.21e-145transcription factor IIIA