PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Solyc04g008500.2.1
Organism
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; Lycopersicon
Family C2H2
Protein Properties Length: 518aa    MW: 57519.5 Da    PI: 9.23
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc04g008500.2.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H214.30.000125373323
                        ETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                        C+ C+k F r  nL+ H r H
  Solyc04g008500.2.1 53 CEVCNKGFQREQNLQLHRRGH 73
                        *******************88 PP

2zf-C2H214.69.7e-05128150123
                         EEETTTTEEESSHHHHHHHHHHT CS
             zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                         +kC++C+k +  +s+ k H +t+
  Solyc04g008500.2.1 128 FKCEKCSKKYAVQSDWKAHTKTC 150
                         89*******************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.609.8E-65073IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.95E-75073No hitNo description
SMARTSM003550.0255173IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015710.975173IPR007087Zinc finger, C2H2
PROSITE patternPS0002805373IPR007087Zinc finger, C2H2
SMARTSM0035516093123IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.603.6E-5116149IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.95E-7123148No hitNo description
SMARTSM0035588128148IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 518 aa     Download sequence    Send to blast
MREEELSQNQ QENLLQAQAP SKKRRNQPGT PSPDAEVIAL SPNTLMATNR FLCEVCNKGF  60
QREQNLQLHR RGHNLPWKLK QKNTKEVAKR KVYLCPEPTC VHHEPSRALG DLTGIKKHYF  120
RKHGEKKFKC EKCSKKYAVQ SDWKAHTKTC GTREYRCDCG TLFSRRDSFI THRAFCDALV  180
QENARNILSP NSLMNTLGMN NNQYLYGSSS NINLGTFSKL GNNNNITKTT TTTTTTTSGV  240
QFDHHHHDNN LIGSSTTTTT TTNNPFFLQD TNQDHYNANN NNIKPLMVHG LMQLPNLDHN  300
NNNSSSSTTM FNLNFFQNNL STNSGILGDH HHHHHRHDNN SNISCSIPSL YGVQVLESSN  360
TTFSSGPIMS ATALLQKAAQ MGSSSTSNIS ATASLFKAFG SNTSGSSSSG TKSDHQAFNF  420
GSDITDSGII NAYGGGSHEG YNTTTKLNFE QNQGPPQKKQ LTRDFLGVGE IVRSMNGRFS  480
TQREQQQQNN GLNNMMSSLL DPERNQIQQS FGSATND*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C8e-33124201372Zinc finger protein JACKDAW
5b3h_F8e-33124201372Zinc finger protein JACKDAW
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.227590.0callus| leaf
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that may act a transcriptional activator of nuclear-encoded photosynthetic gene expression (Probable). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). {ECO:0000269|PubMed:24821766, ECO:0000305|PubMed:19726569}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00256DAPTransfer from AT2G02080Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc04g008500.2.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by gibberellin. {ECO:0000305|PubMed:17933900}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004236896.10.0protein indeterminate-domain 5, chloroplastic isoform X2
SwissprotQ8GYC11e-125IDD4_ARATH; Protein indeterminate-domain 4, chloroplastic
TrEMBLA0A3Q7FW430.0A0A3Q7FW43_SOLLC; Uncharacterized protein
STRINGSolyc04g008500.2.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA10324350
Representative plantOGRP9516242
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02080.11e-108indeterminate(ID)-domain 4
Publications ? help Back to Top
  1. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]
  2. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]