PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Transcription Factor Information
Basic Information? help Back to Top | |||||||||
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TF ID | Pavir.9KG548300.1.p | ||||||||
Common Name | SWN5 | ||||||||
Organism | |||||||||
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
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Family | NAC | ||||||||
Protein Properties | Length: 359aa MW: 39608.1 Da PI: 5.1946 | ||||||||
Description | NAC family protein | ||||||||
Gene Model |
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Signature Domain? help Back to Top | |||||||
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No. | Domain | Score | E-value | Start | End | HMM Start | HMM End |
1 | NAM | 176 | 1.1e-54 | 8 | 137 | 1 | 129 |
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk...kvkaeekewyfFskrdkkyatgkrknratksgyWkatg 87 +ppGfrFhPtdeelv +yL+kkv+++k++l +vi+++d+y++ePwdL++ ++e+++wyfFs +d+ky+tg+r+nrat +g+Wkatg Pavir.9KG548300.1.p 8 VPPGFRFHPTDEELVGYYLRKKVASQKIDL-DVIRDIDLYRIEPWDLQEhcgIGYEEQNDWYFFSYKDRKYPTGTRTNRATMAGFWKATG 96 69****************************.9***************953543334677******************************* PP NAM 88 kdkevlskkgelvglkktLvfykgrapkgektdWvmheyrle 129 +dk+v++ k++l+g++ktLvfykgrap+g+ktdW+mheyrle Pavir.9KG548300.1.p 97 RDKAVHD-KNRLIGMRKTLVFYKGRAPNGQKTDWIMHEYRLE 137 *******.999*****************************85 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF101941 | 5.1E-60 | 6 | 157 | IPR003441 | NAC domain |
PROSITE profile | PS51005 | 59.027 | 8 | 157 | IPR003441 | NAC domain |
Pfam | PF02365 | 1.3E-28 | 9 | 136 | IPR003441 | NAC domain |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0006355 | Biological Process | regulation of transcription, DNA-templated | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003677 | Molecular Function | DNA binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 359 aa Download sequence Send to blast |
MDSMESCVPP GFRFHPTDEE LVGYYLRKKV ASQKIDLDVI RDIDLYRIEP WDLQEHCGIG 60 YEEQNDWYFF SYKDRKYPTG TRTNRATMAG FWKATGRDKA VHDKNRLIGM RKTLVFYKGR 120 APNGQKTDWI MHEYRLETDE NAPPQEEGWV VCRAFKKRTA YPARSMAMAW DSGYSYREVS 180 AMGAAAAEAA AFVDPNVAYA QIRRQSKSAR FKQEAELDGA AALLQYSSHL VELPQLESPS 240 APLAPNPSQA SSADEVDGAD SGRRGKKARS ADKMATDWRA LDKFVASQLS PGGGSLEATA 300 SAAAANNVGS QLDHGEDDDM AALLFLNSDG REEAERWTGL LGPAGGDGGD FGLCVFEK* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
3ulx_A | 6e-50 | 5 | 161 | 12 | 172 | Stress-induced transcription factor NAC1 |
Search in ModeBase |
Expression -- UniGene ? help Back to Top | ||||||
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UniGene ID | E-value | Expressed in | ||||
Pvr.6471 | 0.0 | callus |
Expression -- Description ? help Back to Top | ||||||
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Source | Description | |||||
Uniprot | DEVELOPMENTAL 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}. | |||||
Uniprot | TISSUE SPECIFICITY: Expressed in root metaxylem pole and in shoot pre-procambium and procambium (PubMed:18445131). Present in root developing xylems (PubMed:16103214). Specifically expressed in vessels but not in interfascicular fibers in stems (PubMed:25148240). {ECO:0000269|PubMed:16103214, ECO:0000269|PubMed:18445131, ECO:0000269|PubMed:25148240}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription 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:25148240). {ECO:0000250|UniProtKB:Q9LVA1, ECO:0000269|PubMed:25148240}. |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Pavir.9KG548300.1.p |
Regulation -- Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | INDUCTION: Induced by chitin (e.g. chitooctaose) (PubMed:17722694). Accumulates in plants exposed to callus induction medium (CIM) (PubMed:17581762). {ECO:0000269|PubMed:17581762, ECO:0000269|PubMed:17722694}. |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | - |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | KT075087 | 0.0 | KT075087.1 Panicum virgatum secondary wall NAC master switch (SWN5) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_025796192.1 | 0.0 | NAC domain-containing protein 37-like | ||||
Swissprot | Q9SL41 | 1e-133 | NAC37_ARATH; NAC domain-containing protein 37 | ||||
TrEMBL | A0A0K1TPG3 | 0.0 | A0A0K1TPG3_PANVG; Secondary wall NAC master switch | ||||
STRING | Pavir.Ib00161.1.p | 0.0 | (Panicum virgatum) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP3625 | 37 | 68 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT2G18060.1 | 1e-127 | vascular related NAC-domain protein 1 |
Link Out ? help Back to Top | |
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Phytozome | Pavir.9KG548300.1.p |
Publications ? help Back to Top | |||
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