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 PGSC0003DMP400024157
Common NameLOC102594530
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: 339aa    MW: 38113.5 Da    PI: 7.4553
Description C3H family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400024157genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-CCCH38.12.5e-12200225126
                           --S---SGGGGTS--TTTTT-SS-SS CS
               zf-CCCH   1 yktelCrffartGtCkyGdrCkFaHg 26 
                           y   +C+++ +tG+C yGd+CkF+H+
  PGSC0003DMP400024157 200 YQPDICKDYKETGYCGYGDSCKFMHD 225
                           67789********************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF902291.96E-9198230IPR000571Zinc finger, CCCH-type
SMARTSM003561.1E-7199226IPR000571Zinc finger, CCCH-type
PROSITE profilePS5010314.878199227IPR000571Zinc finger, CCCH-type
PfamPF006424.7E-10200225IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:4.10.1000.101.7E-12200230IPR000571Zinc finger, CCCH-type
Gene3DG3DSA:3.30.40.101.5E-13262319IPR013083Zinc finger, RING/FYVE/PHD-type
SuperFamilySSF578502.09E-13277320No hitNo description
PfamPF139201.6E-8277319No hitNo description
PROSITE profilePS5008910.571278316IPR001841Zinc finger, RING-type
SMARTSM001841.2E-4278315IPR001841Zinc finger, RING-type
CDDcd001629.81E-9278319No hitNo description
PROSITE patternPS005180293302IPR017907Zinc finger, RING-type, conserved site
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 339 aa     Download sequence    Send to blast
MENSNTPASD SNAAKAEAEQ LPTAPVCNFF KKPAKGKNIR KRPTVEEGEN EDAEGDSSVI  60
YTKKKLAVTN NKLHFSTGPS KSNKDTEPNV DSKAARFHFE SSKEIQVQND SRATATLETE  120
TEFSRDARAI RERALKQAEE ALKGKSKTGG DEKLYKGMNQ YTDYKAGLRR EHTISSEKAG  180
GAHGPLRASA HIRVSARFDY QPDICKDYKE TGYCGYGDSC KFMHDRGDYK SGWQMEREWD  240
EAEKERKRKL ALGMLNEDDE GAEKSDDDDD DDALPFACFI CREPFVDPVM TKCKHYFCEH  300
CALKHHAKNK KCYVCNQPTL GIFNTAFEIR KRMAAQGK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5z56_M1e-682633314317RING finger protein 113A
5z58_M1e-682633314317RING finger protein 113A
6ff4_t1e-682633314317RING finger protein 113A
6ff7_t1e-682633314317RING finger protein 113A
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400024157
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754410.0HG975441.1 Solanum pennellii chromosome ch02, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006364817.10.0PREDICTED: zinc finger CCCH domain-containing protein 1
RefseqXP_015159622.10.0PREDICTED: zinc finger CCCH domain-containing protein 1
SwissprotQ8GX841e-157C3H1_ARATH; Zinc finger CCCH domain-containing protein 1
TrEMBLM1B2E50.0M1B2E5_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000355220.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA44032337
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G01350.11e-159C3H 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]