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 PGSC0003DMP400018532
Common NameLOC102580793
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: 493aa    MW: 54656.2 Da    PI: 9.4192
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400018532genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.23e-056789123
                          EEETTTTEEESSHHHHHHHHHHT CS
               zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                          + C++C+k F r  nL+ H r H
  PGSC0003DMP400018532 67 FICEICNKGFQRDQNLQLHRRGH 89
                          89*******************88 PP
2zf-C2H212.80.00036144166123
                           EEETTTTEEESSHHHHHHHHHHT CS
               zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                           +kC++C+k +  +s+ k H +t+
  PGSC0003DMP400018532 144 WKCEKCSKKYAVQSDWKAHSKTC 166
                           58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576673.14E-76689No hitNo description
Gene3DG3DSA:3.30.160.601.3E-56689IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PfamPF121715.9E-56789IPR022755Zinc finger, double-stranded RNA binding
PROSITE profilePS5015710.8456789IPR007087Zinc finger, C2H2
SMARTSM003550.0226789IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002806989IPR007087Zinc finger, C2H2
SMARTSM00355110109139IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.2E-4132165IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.14E-7139164No hitNo description
SMARTSM00355140144164IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010075Biological Processregulation of meristem growth
GO:0045604Biological Processregulation of epidermal cell differentiation
GO:0048364Biological Processroot development
GO:0051302Biological Processregulation of cell division
GO:0003676Molecular Functionnucleic acid binding
GO:0042803Molecular Functionprotein homodimerization activity
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 493 aa     Download sequence    Send to blast
MMSGDVFSFP SSVKAVLPHH HQELQTTNPN PKPNTSSKKR RNLPGTPDPD AEVIALSPKS  60
LMATNRFICE ICNKGFQRDQ NLQLHRRGHN LPWKLKQRNK LEQVKKKVYI CPEKTCIHHD  120
PSRALGDLTG IKKHFSRKHG EKKWKCEKCS KKYAVQSDWK AHSKTCGTRE YKCDCGTLFS  180
RKDSFITHRA FCDALAEESS RITSVGATNL INFPNNVTLL NQQQSNLHGG FAGFRSDFGS  240
YTTGNNNNSL HQHQHQQQQQ KPRLSLWLDQ QAAQISSSSN LFDNSSTGGF QEMIQMQSQN  300
VFGSSNSTSA NFSMAEAYNS LYSDSQNSQL TKQNSTTPMS ATALLQKAAQ MGSTKSNQST  360
FFSNNFSKLN SSSSSSPNTP TFTSLQSCET TDQIFAKKSE DYTTSLLHSN NGLIGCPNFT  420
SSGINKAINL DEAIMQTVGM HSTQAVSMNG MDNCLTRDFL GIKHEGNCQF LPQEIIKFAS  480
MNSSAMGLSH LQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C1e-37140209372Zinc finger protein JACKDAW
5b3h_F1e-37140209372Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds to the DNA sequence 5'-CTTTTGTCC-3' (PubMed:21265895, PubMed:25929516). Regulates photoperiodic flowering by modulating sugar transport and metabolism (PubMed:21265895, PubMed:25929516). Regulates SUS1 and SUS4 (PubMed:21265895). Transcription factor that regulates tissue boundaries and asymmetric cell division (PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:25829440). {ECO:0000269|PubMed:21265895, ECO:0000269|PubMed:25829440, ECO:0000269|PubMed:25929516}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00485DAPTransfer from AT5G03150Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400018532
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by 'SHORT-ROOT' (SHR)(PubMed:16640459). Strongly down-regulated by sugar deprivation, but not regulated by day-length. {ECO:0000269|PubMed:16640459}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754490.0HG975449.1 Solanum pennellii chromosome ch10, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006339068.10.0PREDICTED: zinc finger protein JACKDAW-like
SwissprotQ9FFH31e-113IDD8_ARATH; Zinc finger protein NUTCRACKER
TrEMBLM1APA70.0M1APA7_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000271590.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA10324350
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G03150.11e-102C2H2-like zinc finger 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]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]
  3. Long Y, et al.
    In vivo FRET-FLIM reveals cell-type-specific protein interactions in Arabidopsis roots.
    Nature, 2017. 548(7665): p. 97-102
    [PMID:28746306]