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 PGSC0003DMP400026610
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: 655aa    MW: 73804.3 Da    PI: 9.7269
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400026610genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H212.30.00051538563123
                           EEET..TTTEEESSHHHHHHHHHH.T CS
               zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                           y C    C++sFs+k +L+ H ++ +
  PGSC0003DMP400026610 538 YHCDleGCSMSFSSKQELTLHKKNvC 563
                           889999***************99866 PP
2zf-C2H2120.00065562585223
                           EET..TTTEEESSHHHHHHHHHHT CS
               zf-C2H2   2 kCp..dCgksFsrksnLkrHirtH 23 
                           +Cp   C+k F ++ +L++H r+H
  PGSC0003DMP400026610 562 VCPveGCKKKFFSHKYLVQHRRVH 585
                           69999*****************99 PP
3zf-C2H211.90.00071621647123
                           EEET..TTTEEESSHHHHHHHHHH..T CS
               zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt..H 23 
                           y C+   Cg++F+  s++ rH r+  H
  PGSC0003DMP400026610 621 YACTetGCGQTFRFVSDFSRHKRKtgH 647
                           889999****************99666 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM003558.6538560IPR015880Zinc finger, C2H2-like
SMARTSM003550.012561585IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.572561590IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.602.0E-5561584IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS000280563585IPR007087Zinc finger, C2H2
SuperFamilySSF576676.35E-10577619No hitNo description
Gene3DG3DSA:3.30.160.601.2E-5585597IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.0014591615IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.741591620IPR007087Zinc finger, C2H2
PROSITE patternPS000280593615IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.606.1E-4598613IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.78E-8609643No hitNo description
Gene3DG3DSA:3.30.160.602.9E-9614644IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003550.36621647IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015711.157621652IPR007087Zinc finger, C2H2
PROSITE patternPS000280623647IPR007087Zinc 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: 655 aa     Download sequence    Send to blast
MVKLYVLIAG RFVKRAPALI DVPVESSDRI QKLNNGSVEG FSRTKAHKET SSLGLLALAY  60
ANSSDSDEDE VEADIPVEAC ESRHTDSEDE VFLRVIDPYG NHRQKRAVSQ GRNCQKTDNS  120
VQLENESYPS GESNTLLGRS SHQPRSHQVA AKCISNIGEI VQNNAVAPFD HARMQFTSTS  180
DEDSFRIHVF CLQHAVQVEE QLRRIGGARI SLLCHPDYPK LEAQAKQVAE ELGSDHFWRE  240
ISFREATKDD EEMIQSALEI EEAIHGNGDW TVKLDINLFY SANLSRSPLY SKQMPYNFII  300
YNAFGRNSPD NTPEKSEYTG RGSGKQRRAI VAGKWCGKVW MSSQVHPLLA ERTIDEEQEQ  360
NKSISAQIKI EVKSERPRER TPTGKTVSTA CKTGKKRSST AVSRNASNAQ LIIADDHDDS  420
LLSSILQQHR KTNLRSKRIK YETPEPQKDV DKKKIFGSII DDDPDGGPST RLRKRIPKPS  480
NESPAKLVKV KPAPTKQHES KKGPKVKLPS ANSNAKKEPV TKGPRSNIGK RMREEGEYHC  540
DLEGCSMSFS SKQELTLHKK NVCPVEGCKK KFFSHKYLVQ HRRVHMDDRP LKCPWKGCKM  600
TFKWAWARTE HIRVHTGARP YACTETGCGQ TFRFVSDFSR HKRKTGHVSK KGRS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6a57_A6e-6553865123136Lysine-specific demethylase REF6
6a58_A6e-6553865123136Lysine-specific demethylase REF6
6a59_A6e-6553865123136Lysine-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
PlantRegMapPGSC0003DMP400026610
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
STRINGPGSC0003DMT4000392240.0(Solanum tuberosum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G48430.19e-69relative 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]