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.1KG411800.3.p | ||||||||
Common Name | SWN8B | ||||||||
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: 354aa MW: 39845.5 Da PI: 6.574 | ||||||||
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 | 180 | 6.2e-56 | 7 | 136 | 1 | 129 |
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk..kvka.eekewyfFskrdkkyatgkrknratksgyWkatg 87 +ppGfrFhPtdeelv++yL+kkv+++k++l +vik++d+yk+ePwdL++ k+ e++ewyfFs++dkky+tg+r+nrat++g+Wkatg Pavir.1KG411800.3.p 7 VPPGFRFHPTDEELVDYYLRKKVASNKIDL-DVIKDIDLYKIEPWDLQEkcKIGMeEQNEWYFFSHKDKKYPTGTRTNRATTAGFWKATG 95 69****************************.9***************952433333556******************************* PP NAM 88 kdkevlskkgelvglkktLvfykgrapkgektdWvmheyrle 129 +dk++++ k+ lvg++ktLvfy+grap+g+k+dW+mheyrle Pavir.1KG411800.3.p 96 RDKPIYT-KNCLVGMRKTLVFYRGRAPNGQKSDWIMHEYRLE 136 *******.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 | 1.96E-61 | 5 | 156 | IPR003441 | NAC domain |
PROSITE profile | PS51005 | 60.035 | 7 | 156 | IPR003441 | NAC domain |
Pfam | PF02365 | 1.1E-28 | 8 | 135 | 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:0048759 | Biological Process | xylem vessel member cell differentiation | ||||
GO:1901348 | Biological Process | positive regulation of secondary cell wall biogenesis | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003677 | Molecular Function | DNA binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 354 aa Download sequence Send to blast |
MDTFSHVPPG FRFHPTDEEL VDYYLRKKVA SNKIDLDVIK DIDLYKIEPW DLQEKCKIGM 60 EEQNEWYFFS HKDKKYPTGT RTNRATTAGF WKATGRDKPI YTKNCLVGMR KTLVFYRGRA 120 PNGQKSDWIM HEYRLETAEN GTTPEEGWVV CRVFKKRVAT VRRMADGAPC WFDDHVAGFM 180 PDLGSPRQLM MQHHHHPSTS AAAAAYGGQQ QLYHCKPELE YHHLLPSQEA AFLQQLPQLE 240 SPKPPAYIAQ GSSSLQSSDE ASIRYTAAQQ PDIEAAYMAA AGDDDSVTDW RVLDKFVASQ 300 LFSHGDGTTK EAAYSNPTQV FQAGRNKQRE EALDYASTSA NGGGGGSEAD MWK* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
1ut4_A | 1e-51 | 7 | 157 | 17 | 166 | NO APICAL MERISTEM PROTEIN |
1ut4_B | 1e-51 | 7 | 157 | 17 | 166 | NO APICAL MERISTEM PROTEIN |
1ut7_A | 1e-51 | 7 | 157 | 17 | 166 | NO APICAL MERISTEM PROTEIN |
1ut7_B | 1e-51 | 7 | 157 | 17 | 166 | NO APICAL MERISTEM PROTEIN |
3swm_A | 2e-51 | 7 | 157 | 20 | 169 | NAC domain-containing protein 19 |
3swm_B | 2e-51 | 7 | 157 | 20 | 169 | NAC domain-containing protein 19 |
3swm_C | 2e-51 | 7 | 157 | 20 | 169 | NAC domain-containing protein 19 |
3swm_D | 2e-51 | 7 | 157 | 20 | 169 | NAC domain-containing protein 19 |
3swp_A | 2e-51 | 7 | 157 | 20 | 169 | NAC domain-containing protein 19 |
3swp_B | 2e-51 | 7 | 157 | 20 | 169 | NAC domain-containing protein 19 |
3swp_C | 2e-51 | 7 | 157 | 20 | 169 | NAC domain-containing protein 19 |
3swp_D | 2e-51 | 7 | 157 | 20 | 169 | NAC domain-containing protein 19 |
4dul_A | 1e-51 | 7 | 157 | 17 | 166 | NAC domain-containing protein 19 |
4dul_B | 1e-51 | 7 | 157 | 17 | 166 | NAC domain-containing protein 19 |
Search in ModeBase |
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, 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 | ||||||
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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:16103214, PubMed:25148240). {ECO:0000250|UniProtKB:Q9LVA1, ECO:0000269|PubMed:16103214, ECO:0000269|PubMed:25148240}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00136 | DAP | Transfer from AT1G12260 | Download |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Pavir.1KG411800.3.p |
Regulation -- PlantRegMap ? help Back to Top | ||||||
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Source | Upstream Regulator | Target Gene | ||||
PlantRegMap | Retrieve | Retrieve |
Annotation -- Nucleotide ? help Back to Top | ||||||
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Source | Hit ID | E-value | Description | |||
GenBank | KT075093 | 0.0 | KT075093.1 Panicum virgatum secondary wall NAC master switch (SWN8B) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_025825485.1 | 0.0 | NAC domain-containing protein 7-like | ||||
Swissprot | Q9FWX2 | 1e-126 | NAC7_ARATH; NAC domain-containing protein 7 | ||||
TrEMBL | A0A0K1TPH7 | 0.0 | A0A0K1TPH7_PANVG; Secondary wall NAC master switch | ||||
STRING | Pavir.J39804.1.p | 0.0 | (Panicum virgatum) |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT1G12260.1 | 1e-105 | NAC 007 |
Link Out ? help Back to Top | |
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Phytozome | Pavir.1KG411800.3.p |
Publications ? help Back to Top | |||
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