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 Glyma.12G004900.1.p
Common NameGLYMA_12G004900, LOC100809525
Organism
Glycine max
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
Family NAC
Protein Properties Length: 348aa    MW: 40196.1 Da    PI: 5.8155
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.12G004900.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM180.34.8e-5671361129
                  NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk..kvka.eekewyfFskrdkkyatgkrknratksgyWkatg 87 
                          +ppGfrFhPtdeelv++yL+kk+++ +++l +vik+vd+yk+ePwdL++  ++ + e++ewyfFs++dkky+tg+r+nrat++g+Wkatg
  Glyma.12G004900.1.p   7 VPPGFRFHPTDEELVDYYLRKKITSGRIDL-DVIKDVDLYKIEPWDLQEicRIGTeEQNEWYFFSHKDKKYPTGTRTNRATAAGFWKATG 95 
                          69****************************.9***************954555442556******************************* PP

                  NAM  88 kdkevlskkgelvglkktLvfykgrapkgektdWvmheyrle 129
                          +dk+++s k+el+g++ktLvfykgrap+g+k+dW+mheyrle
  Glyma.12G004900.1.p  96 RDKAIYS-KHELIGMRKTLVFYKGRAPNGQKSDWIMHEYRLE 136
                          *******.999*****************************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019411.02E-615156IPR003441NAC domain
PROSITE profilePS5100560.2517156IPR003441NAC domain
PfamPF023656.5E-298135IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 348 aa     Download sequence    Send to blast
MNTFTHVPPG FRFHPTDEEL VDYYLRKKIT SGRIDLDVIK DVDLYKIEPW DLQEICRIGT  60
EEQNEWYFFS HKDKKYPTGT RTNRATAAGF WKATGRDKAI YSKHELIGMR KTLVFYKGRA  120
PNGQKSDWIM HEYRLETDEN GTPQEEGWVV CRVFKKRVTT MRKVSEHDSP CWYDDQVPFM  180
LDLDSPKQTS QSNLVYQLPY PCKQELDLPY QLPRDHFLQL PLLESPKLLQ SASAITPNNP  240
MAAYVLDHVN HSTSLLPPSL IQEEQQNFQA TYGNSNSNEQ AVDPVIDWRV LDKFVASQLS  300
QDASKDNIFQ GTDNSNVQFR HLDKQELVVP EQNASTSNSS CPIDLWK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ut4_A3e-49716217171NO APICAL MERISTEM PROTEIN
1ut4_B3e-49716217171NO APICAL MERISTEM PROTEIN
1ut7_A3e-49716217171NO APICAL MERISTEM PROTEIN
1ut7_B3e-49716217171NO APICAL MERISTEM PROTEIN
3swm_A3e-49716220174NAC domain-containing protein 19
3swm_B3e-49716220174NAC domain-containing protein 19
3swm_C3e-49716220174NAC domain-containing protein 19
3swm_D3e-49716220174NAC domain-containing protein 19
3swp_A3e-49716220174NAC domain-containing protein 19
3swp_B3e-49716220174NAC domain-containing protein 19
3swp_C3e-49716220174NAC domain-containing protein 19
3swp_D3e-49716220174NAC domain-containing protein 19
4dul_A3e-49716217171NAC domain-containing protein 19
4dul_B3e-49716217171NAC domain-containing protein 19
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGlyma.12G004900.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006591958.10.0NAC domain-containing protein 7
SwissprotQ9FWX21e-141NAC7_ARATH; NAC domain-containing protein 7
TrEMBLI1LNS30.0I1LNS3_SOYBN; Uncharacterized protein
STRINGGLYMA12G00760.10.0(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF126933106
Representative plantOGRP1715800
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G12260.11e-124NAC 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]