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 Pavir.4KG401400.1.p
Organism
Panicum virgatum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family NAC
Protein Properties Length: 238aa    MW: 26170.2 Da    PI: 5.9972
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.4KG401400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM71.71.9e-223815715128
                  NAM  15 vveyLkkkvegkklelee................vikevdiykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratksgyWkatgk 88 
                          +  yL++++++ ++++ +                +i++v + ++ Pw+L+ ++ +  ++wyfFs++++        +r++ +gyW+  g 
  Pavir.4KG401400.1.p  38 L-TYLQASTSSPQMKILSsissvakaanlpcrpdIIPTVLLQHYSPWELNGTALQAGNQWYFFSHAAQ--------TRIAPNGYWNPIGA 118
                          4.566666666665554445555556666666658**************965566789******9855........68899********* PP

                  NAM  89 dkevlskkgelvglkktLvfykgrapkgektdWvmheyrl 128
                          d++v+s +g  vglkktL+f +g+ pkg kt+W+m+ey+l
  Pavir.4KG401400.1.p 119 DETVTS-SGCIVGLKKTLIFCTGEPPKGFKTNWIMNEYHL 157
                          ******.999*****************************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF023653.1E-1135157IPR003441NAC domain
PROSITE profilePS5100527.30240201IPR003441NAC domain
SuperFamilySSF1019417.06E-3161200IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 238 aa     Download sequence    Send to blast
MTSMNYYTFI SSPFNRLFTA PARINYSGVA LLAWEELLTY LQASTSSPQM KILSSISSVA  60
KAANLPCRPD IIPTVLLQHY SPWELNGTAL QAGNQWYFFS HAAQTRIAPN GYWNPIGADE  120
TVTSSGCIVG LKKTLIFCTG EPPKGFKTNW IMNEYHLQDG GYNVSGGSTS SSSSSSRKSQ  180
RKRVHSSTES NNWVICRVFE SSCGSQVSFH DEGTELSCLD EVFLSLDDYD EVSLPNN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ut4_A4e-226120638170NO APICAL MERISTEM PROTEIN
1ut4_B4e-226120638170NO APICAL MERISTEM PROTEIN
1ut7_A4e-226120638170NO APICAL MERISTEM PROTEIN
1ut7_B4e-226120638170NO APICAL MERISTEM PROTEIN
3swm_A4e-226120641173NAC domain-containing protein 19
3swm_B4e-226120641173NAC domain-containing protein 19
3swm_C4e-226120641173NAC domain-containing protein 19
3swm_D4e-226120641173NAC domain-containing protein 19
3swp_A4e-226120641173NAC domain-containing protein 19
3swp_B4e-226120641173NAC domain-containing protein 19
3swp_C4e-226120641173NAC domain-containing protein 19
3swp_D4e-226120641173NAC domain-containing protein 19
4dul_A4e-226120638170NAC domain-containing protein 19
4dul_B4e-226120638170NAC domain-containing protein 19
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.328220.0root
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in root xylem vessels (PubMed:15923329). Expressed in stems, vascular tissue of cauline leaves and tracheary elements of sepals (PubMed:18069942). {ECO:0000269|PubMed:15923329, ECO:0000269|PubMed:18069942}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that influences tracheary elements and xylem development by negatively regulating secondary cell wall fiber synthesis and programmed cell death. {ECO:0000269|PubMed:18069942, ECO:0000269|PubMed:20458494}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.4KG401400.1.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_025827936.11e-116NAC domain-containing protein 104-like
SwissprotQ8GWK62e-45NC104_ARATH; NAC domain-containing protein 104
TrEMBLA0A2S3GPW11e-115A0A2S3GPW1_9POAL; Uncharacterized protein
TrEMBLA0A2T7F7M21e-115A0A2T7F7M2_9POAL; Uncharacterized protein
STRINGPavir.Da00408.1.p1e-177(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP36673679
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G64530.13e-46xylem NAC domain 1
Publications ? help Back to Top
  1. Zhao C, et al.
    XYLEM NAC DOMAIN1, an angiosperm NAC transcription factor, inhibits xylem differentiation through conserved motifs that interact with RETINOBLASTOMA-RELATED.
    New Phytol., 2017. 216(1): p. 76-89
    [PMID:28742236]
  2. Tang N, et al.
    Natural variation at XND1 impacts root hydraulics and trade-off for stress responses in Arabidopsis.
    Nat Commun, 2018. 9(1): p. 3884
    [PMID:30250259]