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 PGSC0003DMP400053253
Common NameLOC102580787
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 C3H
Protein Properties Length: 342aa    MW: 38323.6 Da    PI: 6.4214
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400053253genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH48.41.5e-15266290226
                           -S---SGGGGTS--TTTTT-SS-SS CS
               zf-CCCH   2 ktelCrffartGtCkyGdrCkFaHg 26 
                           ktelC+ +++tGtC+yG++C+FaHg
  PGSC0003DMP400053253 266 KTELCNKWQETGTCPYGENCQFAHG 290
                           9***********************8 PP
2zf-CCCH19.41.9e-06303328126
                           --S---SGGGGTS--TTTTT-SS-SS CS
               zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                           ykte Cr  +++  C+yG rC+F H+
  PGSC0003DMP400053253 303 YKTEVCRMVLAGDMCPYGHRCHFRHS 328
                           9**********55**********998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.1000.102.1E-18260297IPR000571Zinc finger, CCCH-type
SuperFamilySSF902294.97E-11261296IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010316.117264292IPR000571Zinc finger, CCCH-type
SMARTSM003561.4E-8264291IPR000571Zinc finger, CCCH-type
PfamPF006421.9E-12266290IPR000571Zinc finger, CCCH-type
SuperFamilySSF902298.9E-9298331IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.103.1E-12298331IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010313.188302330IPR000571Zinc finger, CCCH-type
SMARTSM003562.7E-5302329IPR000571Zinc finger, CCCH-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0051511Biological Processnegative regulation of unidimensional cell growth
GO:1901347Biological Processnegative regulation of secondary cell wall biogenesis
GO:0003729Molecular FunctionmRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 342 aa     Download sequence    Send to blast
MQNENPSSDG LNTSIADAAT VPSGNKNFTF SDATSPDLAD NPFLSPTSTH QFDSSEFIPN  60
FYSTFSRSSN SPSLTSFDDT DDLVTDGRLH QASYILEYQQ LYNRYTLCLA HMQESIKEVE  120
ALHQENESLR LVNTDLDRRL SLLTQATIQN CLLSDFNRFG MGVNRDTQIS DPRPPNIRQG  180
SVVEPNRPER RNAERVSLPK SISVRSSGYL KLKAQGGNSG GPSQAKARQK STAPPLTESQ  240
QRVYVPGSKK EEEALEFDVY NQGMLKTELC NKWQETGTCP YGENCQFAHG ITELRPVIRH  300
PRYKTEVCRM VLAGDMCPYG HRCHFRHSLT EEERRTGPGL F*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1rgo_A6e-22266331570Butyrate response factor 2
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400053253
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2153540.0AC215354.2 Solanum lycopersicum cultivar Heinz 1706 chromosome 2 clone C02HBa0011O23, complete sequence.
GenBankAC2154110.0AC215411.2 Solanum lycopersicum cultivar Heinz 1706 chromosome 2 clone C02HBa0180C05, complete sequence.
GenBankHG9754410.0HG975441.1 Solanum pennellii chromosome ch02, complete genome.
GenBankHG9755140.0HG975514.1 Solanum lycopersicum chromosome ch02, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006357820.10.0PREDICTED: zinc finger CCCH domain-containing protein 14-like
TrEMBLM1D0E80.0M1D0E8_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000785830.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA77842129
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G66810.19e-71C3H family protein
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]