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 Solyc12g056980.1.1
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 ERF
Protein Properties Length: 308aa    MW: 33663.7 Da    PI: 8.8985
Description ERF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc12g056980.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP266.84.1e-21124174256
                 AP2   2 gykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkklege 56 
                          y+GVr+++ +g+WvAeIr p++   r+r +lg+f+taeeAa a+++a+ kl+ge
  Solyc12g056980.1.1 124 LYRGVRQRH-WGKWVAEIRLPKN---RTRLWLGTFDTAEEAALAYDKAAYKLRGE 174
                         59******9.**********965...5**************************97 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000181.11E-34123183No hitNo description
SuperFamilySSF541711.24E-23124182IPR016177DNA-binding domain
PROSITE profilePS5103223.235124181IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.102.0E-32124182IPR001471AP2/ERF domain
SMARTSM003802.5E-38124187IPR001471AP2/ERF domain
PfamPF008471.4E-14125174IPR001471AP2/ERF domain
PRINTSPR003672.7E-11125136IPR001471AP2/ERF domain
PRINTSPR003672.7E-11147163IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 308 aa     Download sequence    Send to blast
MATSTMDFWT TTLLDLNSSN SGGELMEALA PFIKSASSPS PSPSVSPSFD LQSSSLSTSF  60
LYESFSSTSQ PNMSSIGLNQ AQIYLSQQVM PAVTFQNNNQ YASYLGPKPV SMKQTGSPPK  120
PPKLYRGVRQ RHWGKWVAEI RLPKNRTRLW LGTFDTAEEA ALAYDKAAYK LRGEFARLNF  180
PHLRHNGSLI GSEFGEYKPL HSSVNAKLQA ICQDLAQGKS IDTKKKRKVS SKAMMVEVEE  240
KEYKKSKTTA EAGSESDGSG SGSGSGSGSG SSPISEYTFD SIWDMCSENY VLHKDPSQEI  300
FNWASLL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gcc_A9e-22123181160ETHYLENE RESPONSIVE ELEMENT BINDING FACTOR 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1223228KKKRKV
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.189760.0leaf| root
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Mostly expressed in roots and leaves. Also detected in flowers and stems. {ECO:0000269|PubMed:9192694}.
Functional Description ? help Back to Top
Source Description
UniProtProbably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc12g056980.1.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004252538.10.0ethylene-responsive transcription factor RAP2-13
SwissprotQ8H1E42e-74RAP24_ARATH; Ethylene-responsive transcription factor RAP2-4
TrEMBLK4DG290.0K4DG29_SOLLC; Uncharacterized protein
STRINGSolyc12g056980.1.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA16102471
Representative plantOGRP6161718
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G78080.19e-52related to AP2 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. Pati A,Vasquez-Robinet C,Heath LS,Grene R,Murali TM
    XcisClique: analysis of regulatory bicliques.
    BMC Bioinformatics, 2006. 7: p. 218
    [PMID:16630346]
  3. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  4. Iwase A, et al.
    WIND1-based acquisition of regeneration competency in Arabidopsis and rapeseed.
    J. Plant Res., 2015. 128(3): p. 389-97
    [PMID:25810222]
  5. Ikeuchi M, et al.
    PRC2 represses dedifferentiation of mature somatic cells in Arabidopsis.
    Nat Plants, 2015. 1: p. 15089
    [PMID:27250255]
  6. Iwase A, et al.
    WIND1 Promotes Shoot Regeneration through Transcriptional Activation of ENHANCER OF SHOOT REGENERATION1 in Arabidopsis.
    Plant Cell, 2017. 29(1): p. 54-69
    [PMID:28011694]