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 Sobic.006G160900.1.p
Common NameSb06g023780, SORBIDRAFT_06g023780
Organism
Sorghum bicolor
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family NAC
Protein Properties Length: 341aa    MW: 39382.4 Da    PI: 6.7015
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.006G160900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM180.34.9e-5671361129
                   NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk..kvka.eekewyfFskrdkkyatgkrknratksgyWkat 86 
                           +ppGfrFhPtdeelv++yL+kkv+ kk++l +vik+vd+yk+ePwdL++  ++ a e++ewyfFs++dkky+tg+r+nrat++g+Wkat
  Sobic.006G160900.1.p   7 VPPGFRFHPTDEELVDYYLRKKVAMKKIDL-DVIKDVDLYKIEPWDLQEkcRIGAeEQNEWYFFSHKDKKYPTGTRTNRATTAGFWKAT 94 
                           69****************************.9***************953444442556****************************** PP

                   NAM  87 gkdkevlskkgelvglkktLvfykgrapkgektdWvmheyrle 129
                           g+dk++++ k+ lvg++ktLvfykgrap+g+k+dW+mheyrle
  Sobic.006G160900.1.p  95 GRDKPIYV-KNCLVGMRKTLVFYKGRAPNGQKSDWIMHEYRLE 136
                           ********.999*****************************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019411.7E-605156IPR003441NAC domain
PROSITE profilePS5100559.4057156IPR003441NAC domain
PfamPF023652.2E-288135IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048759Biological Processxylem vessel member cell differentiation
GO:1901348Biological Processpositive regulation of secondary cell wall biogenesis
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 341 aa     Download sequence    Send to blast
MDAFTHVPPG FRFHPTDEEL VDYYLRKKVA MKKIDLDVIK DVDLYKIEPW DLQEKCRIGA  60
EEQNEWYFFS HKDKKYPTGT RTNRATTAGF WKATGRDKPI YVKNCLVGMR KTLVFYKGRA  120
PNGQKSDWIM HEYRLETNEN GIPHEEGWVV CRVFRKRLAT VQRMVGDSPY WFNDHAGFMP  180
PELGSPRQAA HHQQSAMMYH RQQSSYPCKV ELEYHHLLPQ EHFLQQLPPL ESPKLPDLIG  240
QVDATLQPCG LTPEHGLVRY TVQELQAEPL YLTARNVSGT DWRALDKFVA SQLSNDTTLK  300
ESTSYSNPTQ VFQQSEEKEE ALDYVSTSAS CGGDNDFWKL *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3ulx_A1e-50215710169Stress-induced transcription factor NAC1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Up-regulated during xylem vessel element formation. Expressed preferentially in procambial cells adjacent to root meristem. {ECO:0000269|PubMed:16103214, ECO:0000269|PubMed:25148240}.
UniprotTISSUE SPECIFICITY: Expressed in root, shoot and hypocotyl vascular elements, columella root caps, epidermal and cortex root cells and root-hypocotyl junctions. Observed predominantly in root imature xylem vessels (PubMed:18445131). Present in root developing xylems (PubMed:16103214, PubMed:17565617). Specifically expressed in vessels in the secondary xylem of the root-hypocotyl region, and in vessels but not in interfascicular fibers in stems (PubMed:25148240). {ECO:0000269|PubMed:16103214, ECO:0000269|PubMed:17565617, ECO:0000269|PubMed:18445131, ECO:0000269|PubMed:25148240}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds to the secondary wall NAC binding element (SNBE), 5'-(T/A)NN(C/T)(T/C/G)TNNNNNNNA(A/C)GN(A/C/T)(A/T)-3', in the promoter of target genes (By similarity). Involved in xylem formation by promoting the expression of secondary wall-associated transcription factors and of genes involved in secondary wall biosynthesis and programmed cell death, genes driven by the secondary wall NAC binding element (SNBE). Triggers thickening of secondary walls (PubMed:16103214, PubMed:25148240). {ECO:0000250|UniProtKB:Q9LVA1, ECO:0000269|PubMed:16103214, ECO:0000269|PubMed:25148240}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00136DAPTransfer from AT1G12260Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.006G160900.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0411500.0BT041150.1 Zea mays full-length cDNA clone ZM_BFc0181J04 mRNA, complete cds.
GenBankBT0629130.0BT062913.1 Zea mays full-length cDNA clone ZM_BFc0006K13 mRNA, complete cds.
GenBankJN6340820.0JN634082.1 Zea mays secondary wall NAC transcription factor 6 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002448236.10.0NAC domain-containing protein 7
SwissprotQ9FWX21e-124NAC7_ARATH; NAC domain-containing protein 7
TrEMBLC5YCY60.0C5YCY6_SORBI; Uncharacterized protein
STRINGSb06g023780.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP23703892
Representative plantOGRP1715800
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G12260.11e-104NAC 007
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Heyndrickx KS,Vandepoele K
    Systematic identification of functional plant modules through the integration of complementary data sources.
    Plant Physiol., 2012. 159(3): p. 884-901
    [PMID:22589469]