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 Neem_1095_f_2
Organism
Azadirachta indica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Meliaceae; Azadirachta
Family GRAS
Protein Properties Length: 536aa    MW: 59745.2 Da    PI: 6.1397
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Neem_1095_f_2genomeNGDView Nucleic Acid
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS235.32.8e-721675282374
           GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPilkfshlt 97 
                    ++lL  cA a+++g+l+++q+lL  l+elasp+gd+++Rlaa+ ++AL ++l++        l++s+++    s++          sP++ f + +
  Neem_1095_f_2 167 EQLLNPCAAAITAGNLTRVQHLLYVLHELASPTGDANHRLAAHGLRALTHHLSS--------LSSSSST----STS-------IGPSPWFAFPNNI 243
                    689**************************************************9........3333333....222.......4679********* PP

           GRAS  98 aNqaIleavege.....ervHiiDfdisqGlQWpaLlqaLasRp.egppslRiTgvgspesg.........skeeleetgerLakfAeelgvpfef 178
                    aN+ Il+ ++++     + +Hi+D+++s+G+QWp+Ll+aL+ R+ ++pp +R+T +++ +++            +  ++  +L  fA+++++++++
  Neem_1095_f_2 244 ANSSILQILAQDqqdhaRNLHILDIGVSHGVQWPTLLEALTRRAgGPPPLVRLTIIAPTAENnqntetpfsVGPQGDNYSLQLLAFAKSMNINLQI 339
                    ********998877777889************************55666*******9977667777877776778889999*************** PP

           GRAS 179 nvlvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadh...nsesFlerflealeyysalfdsl 271
                    n l  + l+ l+ + ++++++E+l+V+ +++lh+l    +s+++er+e+L++++sl+Pk v+++e+++d+   n ++F+++f++ +ey++ ++ds+
  Neem_1095_f_2 340 NRLDNHPLQHLNGQIISTSSEEKLIVCAQFRLHHLN---HSTPDERTEFLRVLRSLEPKGVILSENNMDCsciNCGDFATGFARRVEYMWRFLDST 432
                    **9999*****************************8...77778889*******************9765448999******************** PP

           GRAS 272 eaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrp 366
                    ++ +    + r + Er++++ e+ ++++++g++    +e +e+W er++ +GF    ++e+a +  ++llrk++ ++++rvee++g++ l Wk++p
  Neem_1095_f_2 433 STAF----KGRESEERRVMEGEAAKALTNKGEM----NEGKERWCERMRGVGFVGEVFREDAIDGGRALLRKYDsNWEMRVEEKDGCIGLWWKGQP 520
                    9996....77888888888889*********99....99***********************************9999****************** PP

           GRAS 367 LvsvSaWr 374
                    + ++S W+
  Neem_1095_f_2 521 VSFCSLWK 528
                    *******8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098535.349140507IPR005202Transcription factor GRAS
PfamPF035149.6E-70167528IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0042446Biological Processhormone biosynthetic process
GO:2000032Biological Processregulation of secondary shoot formation
Sequence ? help Back to Top
Protein Sequence    Length: 536 aa     Download sequence    Send to blast
MTIEEPEPNP TTDHILDWLE DSVSFLPSFL DDPYNANEID AYQWWNQGQD LDQEHLINSA  60
NTPLNNTNST ANISTTTSVI PATDSAAPSH PTPSDSTRKR RNTDDSVQRS SQNHQQRRNQ  120
GRRIGEADEG NEEGVTAKRS AGNKKNTNKN TANNSNNGNN KEGRWAEQLL NPCAAAITAG  180
NLTRVQHLLY VLHELASPTG DANHRLAAHG LRALTHHLSS LSSSSSTSTS IGPSPWFAFP  240
NNIANSSILQ ILAQDQQDHA RNLHILDIGV SHGVQWPTLL EALTRRAGGP PPLVRLTIIA  300
PTAENNQNTE TPFSVGPQGD NYSLQLLAFA KSMNINLQIN RLDNHPLQHL NGQIISTSSE  360
EKLIVCAQFR LHHLNHSTPD ERTEFLRVLR SLEPKGVILS ENNMDCSCIN CGDFATGFAR  420
RVEYMWRFLD STSTAFKGRE SEERRVMEGE AAKALTNKGE MNEGKERWCE RMRGVGFVGE  480
VFREDAIDGG RALLRKYDSN WEMRVEEKDG CIGLWWKGQP VSFCSLWKLN VKLEDS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_B4e-2816352884473Protein SHORT-ROOT
5b3h_B3e-2816352830419Protein SHORT-ROOT
5b3h_E3e-2816352830419Protein 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}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not induced after treatment with Sinorhizobium meliloti. {ECO:0000269|PubMed:15961669}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024036396.10.0LOW QUALITY PROTEIN: nodulation-signaling pathway 1 protein
SwissprotQ4VYC80.0NSP1_MEDTR; Nodulation-signaling pathway 1 protein
TrEMBLA0A067FFV20.0A0A067FFV2_CITSI; Uncharacterized protein
STRINGXP_006465921.10.0(Citrus sinensis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM107472834
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G13840.11e-161GRAS 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]