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 PGSC0003DMP400025199
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: 431aa    MW: 47163 Da    PI: 7.7817
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400025199genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH23.78.5e-08108129426
                           ---SGGGGTS--TTTTT-SS-SS CS
               zf-CCCH   4 elCrffartGtCkyGdrCkFaHg 26 
                           + C+++ + G C yG++C++ H+
  PGSC0003DMP400025199 108 KVCNYWVK-GNCTYGNTCRYLHS 129
                           68******.*************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5010310.2772248IPR000571Zinc finger, CCCH-type
SMARTSM003560.482247IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.549104131IPR000571Zinc finger, CCCH-type
SuperFamilySSF902297.33E-7105129IPR000571Zinc finger, CCCH-type
SMARTSM003561.8E-5106130IPR000571Zinc finger, CCCH-type
PfamPF006421.7E-5107129IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.106.9E-6108128IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:2.130.10.102.2E-14129234IPR015943WD40/YVTN repeat-like-containing domain
SMARTSM003202.3E-5135174IPR001680WD40 repeat
SuperFamilySSF509781.01E-42137424IPR017986WD40-repeat-containing domain
PfamPF004008.6E-5138174IPR001680WD40 repeat
PROSITE profilePS5029419.327142430IPR017986WD40-repeat-containing domain
PROSITE profilePS5008213.55142183IPR001680WD40 repeat
PRINTSPR003201.1E-6161175IPR020472G-protein beta WD-40 repeat
PROSITE patternPS006780161175IPR019775WD40 repeat, conserved site
SMARTSM00320160214250IPR001680WD40 repeat
Gene3DG3DSA:2.130.10.101.2E-30235426IPR015943WD40/YVTN repeat-like-containing domain
SMARTSM003202.9E-4257294IPR001680WD40 repeat
PfamPF004000.0011259294IPR001680WD40 repeat
PROSITE profilePS5008212.58264303IPR001680WD40 repeat
PRINTSPR003201.1E-6281295IPR020472G-protein beta WD-40 repeat
PROSITE patternPS006780281295IPR019775WD40 repeat, conserved site
SMARTSM003204.0E-4297334IPR001680WD40 repeat
PfamPF004000.0064299333IPR001680WD40 repeat
PRINTSPR003201.1E-6321335IPR020472G-protein beta WD-40 repeat
SMARTSM0032010338381IPR001680WD40 repeat
SMARTSM003203.7384421IPR001680WD40 repeat
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005515Molecular Functionprotein binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 431 aa     Download sequence    Send to blast
MDGSKRVFQR LGPSSQGDNS NNKQQKVCFH WRAGRCNRFP CPFLHRELPG PPQQQQQHAA  60
GNGMSSSKRP HGFSDDNRGA GMRRNPNFNN TWGRTAAGGG AVVRKTEKVC NYWVKGNCTY  120
GNTCRYLHSW TTGDCFTLLT TLEGHQKVVA GIALPSGSDK LYSGSTDKSV RVWDCQSGQC  180
AGVVNFDGEV GSMLSEGPWI FVGLTNLVKA WNTQTGTDLS LNGPVGQVYA LVVGNDMLLA  240
GTEDGILAWK YNGSTNNFDP IKALTGHTHH VVSLVVGANR LYSGSMDNSI RVWNLETLEC  300
LQILTDHTSV VMSVLCWDQF LLSCSLDKTI KVWAANDSGN LEVTYTHQED CGVLALCGMH  360
DSEAKPVLLC SRNDNTIRVY DLPSFSERGK IFSKESVRRI EIGPAGLFFT GDESGQVRVW  420
KWSTESSSTS *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6g6m_A5e-201394248323Tako8
6g6n_A5e-201394248323Tako8
6g6n_B5e-201394248323Tako8
6g6n_C5e-201394248323Tako8
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400025199
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754420.0HG975442.1 Solanum pennellii chromosome ch03, complete genome.
GenBankHG9755150.0HG975515.1 Solanum lycopersicum chromosome ch03, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006353383.10.0PREDICTED: zinc finger CCCH domain-containing protein 48
SwissprotQ9FNZ20.0C3H48_ARATH; Zinc finger CCCH domain-containing protein 48
TrEMBLM1B4U20.0M1B4U2_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000371110.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA28842134
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G25440.10.0zinc finger WD40 repeat protein 1
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]