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 PGSC0003DMP400012773
Organism
Solanum tuberosum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family C2H2
Protein Properties Length: 288aa    MW: 33060.6 Da    PI: 8.2312
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400012773genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H2171.7e-05630123
                          EEET..TTTEEESSHHHHHHHHHHT CS
               zf-C2H2  1 ykCp..dCgksFsrksnLkrHirtH 23
                          ++C+  dC+ s++rk++L rH+ +H
  PGSC0003DMP400012773  6 FVCHidDCHSSYRRKDHLSRHLLLH 30
                          89********************998 PP
2zf-C2H211.60.000863560123
                          EEET..TTTEEESSHHHHHHHHHH.T CS
               zf-C2H2  1 ykCp..dCgksFsrksnLkrHirt.H 23
                          ++Cp   C+ +Fs + n +rH +  H
  PGSC0003DMP400012773 35 FECPvdGCKSTFSFQGNRTRHVKEmH 60
                          89********************9988 PP
3zf-C2H220.31.5e-067498123
                          EEET..TTTEEESSHHHHHHHHHHT CS
               zf-C2H2  1 ykCp..dCgksFsrksnLkrHirtH 23
                          y+C+   Cgk+F+  s L++H  +H
  PGSC0003DMP400012773 74 YVCSeaGCGKVFKYASKLRKHEDSH 98
                          99*******************9888 PP
4zf-C2H2218.7e-07165189223
                           EET..TTTEEESSHHHHHHHHHH.T CS
               zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                           kC+  dC+ +Fs++snL +Hi+  H
  PGSC0003DMP400012773 165 KCEfqDCPHTFSTRSNLAQHIKAvH 189
                           79999****************9888 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.603.6E-9232IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.98E-6332No hitNo description
SMARTSM003550.17630IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.66635IPR007087Zinc finger, C2H2
PROSITE patternPS000280830IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.607.0E-43357IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576678.7E-53361No hitNo description
SMARTSM003550.0373560IPR015880Zinc finger, C2H2-like
PROSITE profilePS501578.6213565IPR007087Zinc finger, C2H2
PROSITE patternPS0002803760IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.2E-77198IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.55E-57298No hitNo description
PROSITE profilePS5015711.42774103IPR007087Zinc finger, C2H2
SMARTSM003550.0017498IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002807698IPR007087Zinc finger, C2H2
SMARTSM003556106131IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280108131IPR007087Zinc finger, C2H2
SMARTSM0035513134155IPR015880Zinc finger, C2H2-like
SuperFamilySSF576671.17E-9145202No hitNo description
SMARTSM003550.001164189IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015713.277164194IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.604.4E-6165191IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280166189IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.604.3E-5192217IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003559.6195221IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280197221IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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: 288 aa     Download sequence    Send to blast
MRQRPFVCHI DDCHSSYRRK DHLSRHLLLH QGKLFECPVD GCKSTFSFQG NRTRHVKEMH  60
DQSASAEVDL PKEYVCSEAG CGKVFKYASK LRKHEDSHVK LETVEAMCLE PGCMKHFTNE  120
KCLKEHIESC HQHIVCEICG TKQLKKNIKR HLRTHEEGPI SERIKCEFQD CPHTFSTRSN  180
LAQHIKAVHV GAKPFSCSIS GCGMKFAFKH VRDKHEQSGC HVYTPGDFEE ADEQFLSRQR  240
GGRKREPTLF ESIMRKRITP PSGTDPVFNQ TPEYLSWLGS MESDNQM*
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
PlantRegMapPGSC0003DMP400012773
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ8821790.0DQ882179.1 Lycopersicon esculentum transcription factor IIIA mRNA, complete cds.
GenBankDQ8821800.0DQ882180.1 Lycopersicon esculentum transcription factor IIIA mRNA, complete cds, alternatively spliced.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006364766.10.0PREDICTED: zinc finger protein 16
SwissprotQ84MZ41e-100TF3A_ARATH; Transcription factor IIIA
TrEMBLM1AAV20.0M1AAV2_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000185590.0(Solanum tuberosum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.11e-109transcription factor IIIA
Publications ? help Back to Top
  1. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]