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.9NG493300.1.p | ||||||||
Common Name | SWN4B | ||||||||
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: 338aa MW: 37435.8 Da PI: 6.1377 | ||||||||
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 | 172.2 | 1.6e-53 | 5 | 137 | 1 | 129 |
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk..kvka.eekewyfFskrdkkyatgkrknratksgyWkatg 87 +ppGfrFhPtdeelv +yL+kkv+++k++l +vi++vd+y++ePwdL++ k+ e+++wyfFs +d+ky+tg+r+nrat +g+Wkatg Pavir.9NG493300.1.p 5 VPPGFRFHPTDEELVGYYLRKKVASQKIDL-DVIRDVDLYRIEPWDLQEhcKIGYeEQSDWYFFSYKDRKYPTGTRTNRATLTGFWKATG 93 69****************************.9***************953433332556******************************* PP NAM 88 kdkevlsk..kgelvglkktLvfykgrapkgektdWvmheyrle 129 +dk+v ++ +g l+g++ktLvfy+grap+g+ktdW+mheyrle Pavir.9NG493300.1.p 94 RDKAVRDSkhGGGLIGMRKTLVFYTGRAPNGRKTDWIMHEYRLE 137 ******98777888****************************85 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF101941 | 5.36E-59 | 3 | 157 | IPR003441 | NAC domain |
PROSITE profile | PS51005 | 59.477 | 5 | 157 | IPR003441 | NAC domain |
Pfam | PF02365 | 2.6E-28 | 6 | 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: 338 aa Download sequence Send to blast |
MESCVPPGFR FHPTDEELVG YYLRKKVASQ KIDLDVIRDV DLYRIEPWDL QEHCKIGYEE 60 QSDWYFFSYK DRKYPTGTRT NRATLTGFWK ATGRDKAVRD SKHGGGLIGM RKTLVFYTGR 120 APNGRKTDWI MHEYRLETDE NAAPQEEGWV VCRAFKKRTM HPPRSVAGAW DPSYPYYHDP 180 VLAGAARFKQ ESPELDGGAA SAASALLQYS SRLAELPQLE SPPLPNQGSH RASADGEGDP 240 AAATDWRALD RFVASQLIPP DEDHAAAGQG GLQQQEYYCG KPPLGAAHAE DSTDQDATDM 300 VALLLLDGAA RHEEAGLLGS VADPACLHKN AARFRKP* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
3ulx_A | 3e-47 | 2 | 159 | 12 | 170 | Stress-induced transcription factor NAC1 |
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: Detected in root protoxylem and metaxylem poles and in vessels of protoxylems, outermost metaxylems, inner metaxylems, shoots and hypocotyls (PubMed:18445131). Expressed in roots, hypocotyls, cotyledons and leaves. Present in developing xylems (PubMed:16103214, PubMed:16581911). Specifically expressed in vessels but not in interfascicular fibers in stems (PubMed:25148240). {ECO:0000269|PubMed:16103214, ECO:0000269|PubMed:16581911, 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.9NG493300.1.p |
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 | KT075086 | 0.0 | KT075086.1 Panicum virgatum secondary wall NAC master switch (SWN4B) mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_025796895.1 | 0.0 | NAC domain-containing protein 105-like | ||||
Swissprot | O65508 | 1e-109 | NAC76_ARATH; NAC domain-containing protein 76 | ||||
TrEMBL | A0A0K1TPD5 | 0.0 | A0A0K1TPD5_PANVG; Secondary wall NAC master switch | ||||
STRING | Pavir.Ia02924.1.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 | ||||
AT4G36160.1 | 1e-106 | NAC domain containing protein 76 |
Link Out ? help Back to Top | |
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Phytozome | Pavir.9NG493300.1.p |
Publications ? help Back to Top | |||
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