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 PGSC0003DMP400012774
Common NameLOC102603483
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: 370aa    MW: 42626.4 Da    PI: 7.9335
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400012774genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H218.55.5e-066282323
                          ETTTTEEESSHHHHHHHHHHT CS
               zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                          C+ Cg sF  + +Lk+H+++H
  PGSC0003DMP400012774 62 CEECGVSFQKPAHLKQHMQSH 82
                          *******************99 PP
2zf-C2H216.52.3e-0588112123
                           EEET..TTTEEESSHHHHHHHHHHT CS
               zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                           ++C+  dC+ s++rk++L rH+ +H
  PGSC0003DMP400012774  88 FVCHidDCHSSYRRKDHLSRHLLLH 112
                           89********************998 PP
3zf-C2H211.20.0012117142123
                           EEET..TTTEEESSHHHHHHHHHH.T CS
               zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                           ++Cp   C+ +Fs + n +rH +  H
  PGSC0003DMP400012774 117 FECPvdGCKSTFSFQGNRTRHVKEmH 142
                           89********************9988 PP
4zf-C2H219.92e-06156180123
                           EEET..TTTEEESSHHHHHHHHHHT CS
               zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                           y+C+   Cgk+F+  s L++H  +H
  PGSC0003DMP400012774 156 YVCSeaGCGKVFKYASKLRKHEDSH 180
                           99*******************9888 PP
5zf-C2H220.61.2e-06247271223
                           EET..TTTEEESSHHHHHHHHHH.T CS
               zf-C2H2   2 kCp..dCgksFsrksnLkrHirt.H 23 
                           kC+  dC+ +Fs++snL +Hi+  H
  PGSC0003DMP400012774 247 KCEfqDCPHTFSTRSNLAQHIKAvH 271
                           79999****************9888 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM00355261638IPR015880Zinc finger, C2H2-like
SMARTSM003550.00956082IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015713.4226087IPR007087Zinc finger, C2H2
PROSITE patternPS0002806282IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.4E-86287IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576677.12E-1072114No hitNo description
Gene3DG3DSA:3.30.160.602.0E-988114IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.1788112IPR015880Zinc finger, C2H2-like
PROSITE profilePS501579.6688117IPR007087Zinc finger, C2H2
PROSITE patternPS00028090112IPR007087Zinc finger, C2H2
SMARTSM003550.037117142IPR015880Zinc finger, C2H2-like
PROSITE profilePS501578.621117147IPR007087Zinc finger, C2H2
PROSITE patternPS000280119142IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.7E-7153180IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576676.25E-5154180No hitNo description
SMARTSM003550.001156180IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.427156185IPR007087Zinc finger, C2H2
PROSITE patternPS000280158180IPR007087Zinc finger, C2H2
SMARTSM003556188213IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280190213IPR007087Zinc finger, C2H2
SMARTSM0035513216237IPR015880Zinc finger, C2H2-like
SuperFamilySSF576671.33E-9227284No hitNo description
PROSITE profilePS5015713.277246276IPR007087Zinc finger, C2H2
SMARTSM003550.001246271IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.606.2E-6247273IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280248271IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.606.0E-5274299IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003559.6277303IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280279303IPR007087Zinc 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: 370 aa     Download sequence    Send to blast
MGEEKREVVF RDIRRYYCEF CGLCRSKKSL ISSHIQSHHQ DEIESRKDEA TENAKDSKMN  60
ICEECGVSFQ KPAHLKQHMQ SHSLERPFVC HIDDCHSSYR RKDHLSRHLL LHQGKLFECP  120
VDGCKSTFSF QGNRTRHVKE MHDQSASAEV DLPKEYVCSE AGCGKVFKYA SKLRKHEDSH  180
VKLETVEAMC LEPGCMKHFT NEKCLKEHIE SCHQHIVCEI CGTKQLKKNI KRHLRTHEEG  240
PISERIKCEF QDCPHTFSTR SNLAQHIKAV HVGAKPFSCS ISGCGMKFAF KHVRDKHEQS  300
GCHVYTPGDF EEADEQFLSR QRGGRKREPT LFESIMRKRI TPPSGTDPVF NQTPEYLSWL  360
GSMESDNQM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tf6_A3e-156420819155PROTEIN (TRANSCRIPTION FACTOR IIIA)
1tf6_D3e-156420819155PROTEIN (TRANSCRIPTION FACTOR IIIA)
Search in ModeBase
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
PlantRegMapPGSC0003DMP400012774
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.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006364766.10.0PREDICTED: zinc finger protein 16
SwissprotQ84MZ41e-139TF3A_ARATH; Transcription factor IIIA
TrEMBLM1AAV30.0M1AAV3_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000185590.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA36442447
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.21e-131transcription 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]