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 PGSC0003DMP400061367
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 GRAS
Protein Properties Length: 543aa    MW: 61002.5 Da    PI: 6.0063
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400061367genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS241.14.7e-741615412374
                  GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykal..ppsetseknsseelaalklfsevs 88 
                           ++lL  cA a++ g+++++q+lL  l+elas +gd+++Rlaa+ ++AL ++l++ +s+ +++    +++ s+ n++    +l  f ++s
  PGSC0003DMP400061367 161 EHLLNPCAAAITVGNMNRVQHLLYVLHELASFTGDANHRLAAHGLRALTHHLSSPGSSSASSGtiGVTNFSSANHKFFRDSLINFIDIS 249
                           699***************************************************666665555115555555555555555555***** PP

                  GRAS  89 PilkfshltaNqaIleavege...ervHiiDfdisqGlQWpaLlqaLasRp.egppslRiTgvgspesg.........skeeleetger 164
                           P++++ + +aN+ +l+ + ++   + +Hi+D+++s+G+QWp+Ll++L+ R+ ++pp +R+T++ + +++                  ++
  PGSC0003DMP400061367 250 PWFRIPNNIANSSVLQIIGEQdrlKNLHILDIGVSHGFQWPTLLEELTRRSgGPPPLVRLTVITPTTENgelrgtpfvIGPPGYDFSSQ 338
                           *******************99555556************************55666*********887789998888877888999*** PP

                  GRAS 165 LakfAeelgvpfefnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqe..adhns. 250
                           L  +A+++++++++n l    l++l+ + ++  ++E+l+++ +++lh+l    +++++ r+++Lk++ksl Pk +v++e++  +++ns 
  PGSC0003DMP400061367 339 LLAYAKAININLQINRLDNFPLQNLNSQIINSTSDETLVICAQFRLHNLN---HTIPDDRTDLLKILKSLDPKGLVLSENNteCSCNSc 424
                           ****************8777*****************************8...8899999*******************9833555552 PP

                  GRAS 251 esFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqakl 339
                           ++F++ f++ +ey + ++ds+++ +    + r + Er++++ e+ +++++ g++    +e++ekW er++++GF +  ++e+a + a++
  PGSC0003DMP400061367 425 GDFATMFSRRVEYLWRFLDSTSVAY----KGRESEERKMMEGEAAKALTNMGEM----NERKEKWCERMRNVGFVKEVFGEDAIDGARA 505
                           69*******************9985....778888888888899********99....88888************************** PP

                  GRAS 340 llrkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374
                           llrk++ ++++rvee++g++ l Wk++p+ ++S W+
  PGSC0003DMP400061367 506 LLRKYDsNWEMRVEEKDGCVDLWWKGQPISFCSLWK 541
                           ******9999*************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098536.895134520IPR005202Transcription factor GRAS
PfamPF035141.6E-71161541IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0042446Biological Processhormone biosynthetic process
GO:2000032Biological Processregulation of secondary shoot formation
Sequence ? help Back to Top
Protein Sequence    Length: 543 aa     Download sequence    Send to blast
MTIEEPEPNS NSDPISEWLA STLSDVPSFL DEPYSYTDDL NFYADSWWVP DQDDQIVNHN  60
IIIDNTCNSF NISSPVNTAI SNIPLEPIIL DQPQPVDLSK KRKISDQNPK TSKKNHNRQI  120
NEAENAHTIG DQGGVQVRRP KRVTTKSTGN NSNNKEGRWA EHLLNPCAAA ITVGNMNRVQ  180
HLLYVLHELA SFTGDANHRL AAHGLRALTH HLSSPGSSSA SSGTIGVTNF SSANHKFFRD  240
SLINFIDISP WFRIPNNIAN SSVLQIIGEQ DRLKNLHILD IGVSHGFQWP TLLEELTRRS  300
GGPPPLVRLT VITPTTENGE LRGTPFVIGP PGYDFSSQLL AYAKAININL QINRLDNFPL  360
QNLNSQIINS TSDETLVICA QFRLHNLNHT IPDDRTDLLK ILKSLDPKGL VLSENNTECS  420
CNSCGDFATM FSRRVEYLWR FLDSTSVAYK GRESEERKMM EGEAAKALTN MGEMNERKEK  480
WCERMRNVGF VKEVFGEDAI DGARALLRKY DSNWEMRVEE KDGCVDLWWK GQPISFCSLW  540
KI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_B1e-3115754184473Protein SHORT-ROOT
5b3h_B5e-3215754130419Protein SHORT-ROOT
5b3h_E5e-3215754130419Protein SHORT-ROOT
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional regulator essential for Nod-factor-induced gene expression. Acts downstream of calcium spiking. May be a target of DMI3, a calcium/calmodulin-dependent protein kinase (CCaMK) (PubMed:15961669). Is essential for Nod factor-elicited expression of ERN1 (PubMed:23077241). {ECO:0000269|PubMed:15961669, ECO:0000269|PubMed:23077241}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400061367
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not induced after treatment with Sinorhizobium meliloti. {ECO:0000269|PubMed:15961669}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
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_006342916.10.0PREDICTED: nodulation-signaling pathway 1 protein-like
SwissprotQ4VYC80.0NSP1_MEDTR; Nodulation-signaling pathway 1 protein
TrEMBLM1DIQ10.0M1DIQ1_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000896920.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA49492139
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G13840.11e-156GRAS family protein
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]
  2. Cerri MR, et al.
    Medicago truncatula ERN transcription factors: regulatory interplay with NSP1/NSP2 GRAS factors and expression dynamics throughout rhizobial infection.
    Plant Physiol., 2012. 160(4): p. 2155-72
    [PMID:23077241]
  3. Tang H, et al.
    An improved genome release (version Mt4.0) for the model legume Medicago truncatula.
    BMC Genomics, 2014. 15: p. 312
    [PMID:24767513]