PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID MDP0000308434
Common NameSCL29
Organism
Malus domestica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Malus
Family GRAS
Protein Properties Length: 552aa    MW: 61147.1 Da    PI: 6.5099
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
MDP0000308434genomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS265.61.7e-811625442374
           GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetsekn.sseelaalkl...fsevsPilkf 93 
                    ++lL  cA a++ g+ +++q+lL  l+elas +gd+++Rlaa+ + AL+++l++s+s+ +   ++s+++ +  s+e  +++k    f+evsP++ f
  MDP0000308434 162 EQLLNPCASAITGGNSTRVQHLLFVLHELASVTGDANHRLAAHGLHALNQHLSSSSSSSAPNGSASAAPVTFtSTEPRFFQKSlmkFYEVSPWFAF 257
                    689**************************************************965554443333333322224443333333566********** PP

           GRAS  94 shltaNqaIleavege....ervHiiDfdisqGlQWpaLlqaLasRp.egppslRiTgvgspesg........skeeleetgerLakfAeelgvpf 176
                     + +aN+ Il+ +++e    +++Hi+D ++s+G+QWp+Ll+aL+ Rp ++pp ++iT+++ +e++             e+  +rL +fA+ +++++
  MDP0000308434 258 PNNIANSSILQLIAEEfdrtRTLHIVDVGVSHGMQWPTLLEALTHRPgGPPPLVKITVIAGAENNqnrgtpfaVGPPGENFSNRLLSFAKYMNINL 353
                    *******9998888777776999************************55566*******98887777888888788899***************** PP

           GRAS 177 efnvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadh...nsesFlerflealeyysalfd 269
                    +++ l  + l++l+ + ++ +++E+l+V+++++lh+l    ++ ++er+e+Lk ++s++Pk v+++e+++++   n ++F+++f++ +ey + ++d
  MDP0000308434 354 QIKRLDDQPLKTLNAQLIDASNDETLIVCVQFRLHQLN---HNAPDERTEFLKSLRSMEPKGVILSENNMECscnNCGDFATGFSRQVEYLWRFLD 446
                    ****9999*****************************8...77777889*******************9665446778****************** PP

           GRAS 270 sleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkd 364
                    s++a +    + r + Er++++ e+ ++++++g++    +e +ekW er++++GF    ++e+a +  ++llrk++ +++++v+e++g++ l Wk+
  MDP0000308434 447 STSAAF----KGRESEERRVMEGEAAKALTNRGEM----NEGKEKWGERMRRVGFVGEVFGEDAIDGGRALLRKYDsNWEMKVDEKDGCVGLWWKG 534
                    **8876....7777777777888899999999998....9************************************9999**************** PP

           GRAS 365 rpLvsvSaWr 374
                    +p+ ++S W+
  MDP0000308434 535 QPVSFCSLWK 544
                    *********8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098540.421135523IPR005202Transcription factor GRAS
PfamPF035145.9E-79162544IPR005202Transcription 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: 552 aa     Download sequence    Send to blast
MTTEQPEPNS TSDHILDWLE DSVTFFPSFW DDPYHSNDID GGLQWWDESH DLVHPTTNPT  60
CLNNPTGISI PTTTTGPPNP ANLNHPSPTD SSKKRKASPE QQHIDRKNHH GRPINPAVPG  120
NQSGEEVVVV PVKKSNGNKK GTAKGTGNNC NNGNSKEGRW AEQLLNPCAS AITGGNSTRV  180
QHLLFVLHEL ASVTGDANHR LAAHGLHALN QHLSSSSSSS APNGSASAAP VTFTSTEPRF  240
FQKSLMKFYE VSPWFAFPNN IANSSILQLI AEEFDRTRTL HIVDVGVSHG MQWPTLLEAL  300
THRPGGPPPL VKITVIAGAE NNQNRGTPFA VGPPGENFSN RLLSFAKYMN INLQIKRLDD  360
QPLKTLNAQL IDASNDETLI VCVQFRLHQL NHNAPDERTE FLKSLRSMEP KGVILSENNM  420
ECSCNNCGDF ATGFSRQVEY LWRFLDSTSA AFKGRESEER RVMEGEAAKA LTNRGEMNEG  480
KEKWGERMRR VGFVGEVFGE DAIDGGRALL RKYDSNWEMK VDEKDGCVGL WWKGQPVSFC  540
SLWKPHEREG NN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_B3e-3815554581474Protein SHORT-ROOT
5b3h_B2e-3815554527420Protein SHORT-ROOT
5b3h_E2e-3815554527420Protein SHORT-ROOT
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in epidermal and cortical root cells. {ECO:0000269|PubMed:15961669}.
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}.
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001287803.10.0nodulation-signaling pathway 1 protein
SwissprotQ4VYC80.0NSP1_MEDTR; Nodulation-signaling pathway 1 protein
TrEMBLD9ZJB40.0D9ZJB4_MALDO; SCL domain class transcription factor
STRINGXP_008391396.10.0(Malus domestica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF68743447
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. 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]
  2. 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]