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 Solyc05g056040.2.1
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 ARF
Protein Properties Length: 651aa    MW: 74231.9 Da    PI: 5.4061
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc05g056040.2.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B369.83.6e-22129229198
                         EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                         f+k lt+sd  ++  l++p k a ++       ++k++ ++l+ +d++g++W++k+ ++++++r+ lt+GW+ Fv +++L +gD vvF   
  Solyc05g056040.2.1 129 FCKCLTQSDIKSNWGLSVPLKDAVKCfppldmRQEKPC-QELIAKDLKGNEWRFKHAHQGQPRRHSLTNGWSTFVTSKKLLAGDLVVFL-- 216
                         99****************************97444455.59************************************************.. PP

                         SSSEE..EEEEE- CS
                  B3  86 grsefelvvkvfr 98 
                         ++++++l+v+++r
  Solyc05g056040.2.1 217 RDETGKLHVGIRR 229
                         569999*****98 PP

2Auxin_resp289.3e-11254313159
          Auxin_resp   1 aahaastksvFevvYnPra.stseFvvkvekvekalkvkvsvGmRfkmafetedsserrl 59 
                         a+ha++tks F v+ +P   ++s+F+ +++k+ +  ++ + vGm  +m++e+ed  + r 
  Solyc05g056040.2.1 254 ASHAFATKSLFFVYQKPCYnKSSQFIMSMSKYFEGGNHGIGVGMISRMQIESEDYCHVRR 313
                         689**************861678*******************************877665 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.6E-34121239IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.02E-28124232IPR015300DNA-binding pseudobarrel domain
CDDcd100172.87E-21128229No hitNo description
PROSITE profilePS5086312.055129231IPR003340B3 DNA binding domain
SMARTSM010191.3E-18129231IPR003340B3 DNA binding domain
PfamPF023621.1E-19129229IPR003340B3 DNA binding domain
PfamPF065071.7E-7254312IPR010525Auxin response factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 651 aa     Download sequence    Send to blast
MVDQLRFSQQ KYLNHMPFKG DDDLCREIWK ACSGSLLDVS KAGERVYYFP RLHVEQLEQS  60
SNQELIEKLQ LSNLPPKILC RVLHIRLLVE HETEEVYAET ILIPNQDQNE PTAADFSPLD  120
NPRPQFQSFC KCLTQSDIKS NWGLSVPLKD AVKCFPPLDM RQEKPCQELI AKDLKGNEWR  180
FKHAHQGQPR RHSLTNGWST FVTSKKLLAG DLVVFLRDET GKLHVGIRRL SYQHCSVGAS  240
TFSRQSMEVV LAVASHAFAT KSLFFVYQKP CYNKSSQFIM SMSKYFEGGN HGIGVGMISR  300
MQIESEDYCH VRRTNDLEQI SLSQSQQTTN FMLEEDQYMQ DSEAVLDCAQ STMIDLEIRQ  360
QTIGSLNNIH CFAPVEDNGL QLHAAVAREN NEGSIPKDTV STHTRDEDLY ELFKDFDFPD  420
STNTSLDTIA LDLGSDWFRS TLQEQEETVT PSQPNASEDH SRRTSSVLEH PNSFRVMSIS  480
SNPSQIPYEG PGRGDEQVPW GGYQVARRTL PILSRVVSRY PDSLVNFRVA SSILQSVYLE  540
ILAELVYFLD NLTIVNLSKD QFNVARQHIW DLKLSGIEIG WLENRLLHID EVFSMESLLQ  600
RRQALTRRME ETFKQLDGEL GCIDKELHEL SLKVGPNSPM RLQSVLEGLL *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A2e-862230717302Auxin response factor 1
4ldw_A2e-862230717302Auxin response factor 1
4ldw_B2e-862230717302Auxin response factor 1
4ldy_A2e-862230717302Auxin response factor 1
4ldy_B2e-862230717302Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.235670.0flower| fruit| root
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc05g056040.2.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHM5651290.0Solanum lycopersicum auxin response factor 13-1 (ARF13-1) mRNA, complete cds, alternatively spliced
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001303697.10.0auxin response factor 24 isoform 1
TrEMBLA0A3Q7GN900.0A0A3Q7GN90_SOLLC; Auxin response factor
STRINGSolyc05g056040.2.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA1459378
Representative plantOGRP5261578
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G46530.15e-98auxin response factor 11
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. Wu J, et al.
    Identification, isolation and expression analysis of auxin response factor (ARF) genes in Solanum lycopersicum.
    Plant Cell Rep., 2011. 30(11): p. 2059-73
    [PMID:21735233]