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 PGSC0003DMP400038397
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: 563aa    MW: 64849.5 Da    PI: 6.3712
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400038397genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH17.29e-06165188327
                           S---SGGGGTS--TTTTT-SS-SSS CS
               zf-CCCH   3 telCrffartGtCkyGdrCkFaHgp 27 
                            ++C++f + G+C+ Gd+C++ Hgp
  PGSC0003DMP400038397 165 PKPCHYFNK-GFCRNGDSCRYFHGP 188
                           579******.*************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010314.793162189IPR000571Zinc finger, CCCH-type
SuperFamilySSF902292.09E-5165187IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.107.6E-5165187IPR000571Zinc finger, CCCH-type
PfamPF128729.3E-11215293IPR025605OST-HTH/LOTUS domain
PROSITE profilePS5164410.916215298IPR025605OST-HTH/LOTUS domain
SMARTSM003600.0046352422IPR000504RNA recognition motif domain
SuperFamilySSF549282.17E-9368440IPR012677Nucleotide-binding alpha-beta plait domain
Gene3DG3DSA:3.30.70.3301.6E-7371432IPR012677Nucleotide-binding alpha-beta plait domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0016021Cellular Componentintegral component of membrane
GO:0000166Molecular Functionnucleotide binding
GO:0003723Molecular FunctionRNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 563 aa     Download sequence    Send to blast
MDPSEAKKRV YEKVMKFEPE KVAREIIGYI FLQDYPEQEM IRLALGPDTL IRNVIQEAKD  60
TFDVNSTPVF RSPSMTAVNI VDPALRFANF SSSYPVSAPR CKPQLSDEHS YLAEILYSSN  120
EPPQQFHPLE EKMYFENLNY PSDYCYPEAP LIRRYRNSPS SFKFPKPCHY FNKGFCRNGD  180
SCRYFHGPFP ESYPLTINPN LCENGDEDEV LSPGSLEKLE LEITELLKEK NGNPVSIASL  240
PMMYYGKYGR TLQAEGYLTE SQRNGKAGYN LTKLLARLKF VHLIERPHGQ HSVVLAQDAA  300
KYMDPHGVRS DPGPIVSDSR QIYLTFPAES TFTEEDVSAY FEYATQHVMF FMCFAFYLAF  360
NTSLIIFLLY VCSTFGPVQD VRMPCQQKRM FGFVTFFSTD TVKMVLSTGN PHYVCGARVL  420
VKPYREKSKL SERKHQERLE SSIFYHFDSR LQEKFKSPRM LRKHLMEEQF LEHEARRLAQ  480
LQLSQKRMAT LPYFVPPMDE FNISQPEHSS HLLDVRNNGS PDEDNSKNSD ESHYADDDSN  540
QRINLPDSPF ASRVASSIAE FL*
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400038397
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754460.0HG975446.1 Solanum pennellii chromosome ch07, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006346254.10.0PREDICTED: zinc finger CCCH domain-containing protein 18-like isoform X1
TrEMBLM1C0F00.0M1C0F0_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000571080.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA341822
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]