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 PGSC0003DMP400026611
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: 403aa    MW: 45600.1 Da    PI: 10.5656
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400026611genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H213.10.00028286311123
                           EEET..TTTEEESSHHHHHHHHHH.T CS
               zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                           y C    C++sFs+k +L+ H ++ +
  PGSC0003DMP400026611 286 YHCDleGCSMSFSSKQELTLHKKNvC 311
                           889999***************99866 PP
2zf-C2H212.80.00036310333223
                           EET..TTTEEESSHHHHHHHHHHT CS
               zf-C2H2   2 kCp..dCgksFsrksnLkrHirtH 23 
                           +Cp   C+k F ++ +L++H r+H
  PGSC0003DMP400026611 310 VCPveGCKKKFFSHKYLVQHRRVH 333
                           69999*****************99 PP
3zf-C2H212.70.00039369395123
                           EEET..TTTEEESSHHHHHHHHHH..T CS
               zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt..H 23 
                           y C+   Cg++F+  s++ rH r+  H
  PGSC0003DMP400026611 369 YACTetGCGQTFRFVSDFSRHKRKtgH 395
                           889999*****************9677 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003558.6286308IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.572309338IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.1E-5309332IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.012309333IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280311333IPR007087Zinc finger, C2H2
SuperFamilySSF576677.13E-10325365No hitNo description
Gene3DG3DSA:3.30.160.607.1E-6333345IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.741339368IPR007087Zinc finger, C2H2
SMARTSM003550.0014339363IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280341363IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.603.4E-4346361IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.93E-8357391No hitNo description
Gene3DG3DSA:3.30.160.601.7E-9362392IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.157369400IPR007087Zinc finger, C2H2
SMARTSM003550.36369395IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280371395IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009741Biological Processresponse to brassinosteroid
GO:0009826Biological Processunidimensional cell growth
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0033169Biological Processhistone H3-K9 demethylation
GO:0035067Biological Processnegative regulation of histone acetylation
GO:0048366Biological Processleaf development
GO:0005634Cellular Componentnucleus
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 403 aa     Download sequence    Send to blast
MIQSALEIEE AIHGNGDWTV KLDINLFYSA NLSRSPLYSK QMPYNFIIYN AFGRNSPDNT  60
PEKSEYTGRG SGKQRRAIVA GKWCGKVWMS SQVHPLLAER TIDEEQEQNK SISAQIKIEV  120
KSERPRERTP TGKTVSTACK TGKKRSSTAV SRNASNAQLI IADDHDDSLL SSILQQHRKT  180
NLRSKRIKYE TPEPQKDVDK KKIFGSIIDD DPDGGPSTRL RKRIPKPSNE SPAKLVKVKP  240
APTKQHESKK GPKVKLPSAN SNAKKEPVTK GPRSNIGKRM REEGEYHCDL EGCSMSFSSK  300
QELTLHKKNV CPVEGCKKKF FSHKYLVQHR RVHMDDRPLK CPWKGCKMTF KWAWARTEHI  360
RVHTGARPYA CTETGCGQTF RFVSDFSRHK RKTGHVSKKG RS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6a57_A9e-6728639923136Lysine-specific demethylase REF6
6a58_A9e-6728639923136Lysine-specific demethylase REF6
6a59_A9e-6728639923136Lysine-specific demethylase REF6
Search in ModeBase
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00608ChIP-seqTransfer from AT3G48430Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400026611
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754420.0HG975442.1 Solanum pennellii chromosome ch03, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006351452.10.0PREDICTED: lysine-specific demethylase REF6
TrEMBLM1B7Y40.0M1B7Y4_SOLTU; Uncharacterized protein
TrEMBLM1B7Y50.0M1B7Y5_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000392240.0(Solanum tuberosum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G48430.18e-65relative of early flowering 6
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]