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 Potri.013G108600.2
Common NamePOPTR_0013s11300g
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: 343aa    MW: 39925.4 Da    PI: 8.1307
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.013G108600.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H220.41.4e-066889223
                        EETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2  2 kCpdCgksFsrksnLkrHirtH 23
                        +C++Cg sF+ + +L +H+++H
  Potri.013G108600.2 68 TCENCGASFKKPAYLIQHMQSH 89
                        6*******************99 PP
2zf-C2H214.50.000195119123
                         EEET..TTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                         +kC   dC+ s++rk++L+rH+  H
  Potri.013G108600.2  95 FKCLfdDCHASYRRKDHLTRHLLQH 119
                         899999***************9887 PP
3zf-C2H220.41.4e-06124149123
                         EEET..TTTEEESSHHHHHHHHHH.T CS
             zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                         +kC+  +C++ F  +snLkrH r  H
  Potri.013G108600.2 124 FKCQieNCNREFVYPSNLKRHVRElH 149
                         89*********************988 PP
4zf-C2H220.11.8e-06164188123
                         EEET..TTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                         y+C+   Cgk F+ +s L++H  +H
  Potri.013G108600.2 164 YVCQepGCGKAFRYPSKLRKHEDSH 188
                         99*******************9888 PP
5zf-C2H215.26.1e-05256280223
                         EET..TTTEEESSHHHHHHHHHH.T CS
             zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                         kC+   C  +Fs+k nL++H +  H
  Potri.013G108600.2 256 KCHfnGCQHTFSTKTNLNQHVKAvH 280
                         7*******************99877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS501578.8712350IPR007087Zinc finger, C2H2
SMARTSM00355242345IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015712.9656794IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.608.1E-76789IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0186789IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002806989IPR007087Zinc finger, C2H2
SuperFamilySSF576677.22E-1081121No hitNo description
Gene3DG3DSA:3.30.160.607.7E-1290121IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.3995124IPR007087Zinc finger, C2H2
SMARTSM003550.04495119IPR015880Zinc finger, C2H2-like
PROSITE patternPS00028097119IPR007087Zinc finger, C2H2
SuperFamilySSF576671.3E-7105157No hitNo description
Gene3DG3DSA:3.30.160.606.7E-7122150IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015712.404124154IPR007087Zinc finger, C2H2
SMARTSM003550.0016124149IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280126149IPR007087Zinc finger, C2H2
SuperFamilySSF576679.01E-7160189No hitNo description
Gene3DG3DSA:3.30.160.603.2E-10160188IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.427164193IPR007087Zinc finger, C2H2
SMARTSM003550.002164188IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280166188IPR007087Zinc finger, C2H2
SMARTSM003550.8196221IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280198221IPR007087Zinc finger, C2H2
SMARTSM0035518224245IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.605.9E-5235277IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576675.45E-7237292No hitNo description
PROSITE profilePS5015711.572255285IPR007087Zinc finger, C2H2
SMARTSM003550.0013255280IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280257280IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.600.001279308IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM0035511286312IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280288312IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 343 aa     Download sequence    Send to blast
MAMIEEEQVE KERPVIFRDI RRYYCDYCGI CRSKKSLITS HVLTHHKEEM DEESVDGDEG  60
KEGVKSNTCE NCGASFKKPA YLIQHMQSHS LERPFKCLFD DCHASYRRKD HLTRHLLQHE  120
GKLFKCQIEN CNREFVYPSN LKRHVRELHD ESFPSCSFGG EKQYVCQEPG CGKAFRYPSK  180
LRKHEDSHVS LDHVEAMCLE PGCMKHFSNK ECLKAHIQSS HQYINCDICG TKQLKKNIKR  240
HLRTHEPASD STERIKCHFN GCQHTFSTKT NLNQHVKAVH LEHRPFLCGF PGCDMRFSYK  300
HVRDNHEKSG LHVYTPVSFM CRSFNTFCSS TWKSVLLTCL EN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2i13_A2e-156324518184Aart
2i13_B2e-156324518184Aart
Search in ModeBase
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.013G108600.2
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_006376244.10.0transcription factor IIIA
SwissprotQ84MZ41e-122TF3A_ARATH; Transcription factor IIIA
TrEMBLU5FVV90.0U5FVV9_POPTR; Uncharacterized protein
STRINGPOPTR_0013s11300.10.0(Populus trichocarpa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.21e-124transcription factor IIIA