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 | Sobic.006G092100.1.p | ||||||||
Common Name | Sb06g017720, SORBIDRAFT_06g017720 | ||||||||
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; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
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Family | NAC | ||||||||
Protein Properties | Length: 345aa MW: 37494.5 Da PI: 7.1641 | ||||||||
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 | 169.2 | 1.3e-52 | 10 | 139 | 1 | 129 |
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk..kvka.eekewyfFskrdkkyatgkrknratksgyWkat 86 +ppGfrFhPtdeel+ +yLkkkv +k++l evi+evd++k+ePw+L++ ++ + ++ewyfFs++d+ky+tg+r+nrat++g+Wkat Sobic.006G092100.1.p 10 VPPGFRFHPTDEELLLYYLKKKVGFEKFDL-EVIREVDLNKIEPWELQErcRIGSaPQNEWYFFSHKDRKYPTGSRTNRATTAGFWKAT 97 69****************************.99**************963433332566****************************** PP NAM 87 gkdkevlskkgelvglkktLvfykgrapkgektdWvmheyrle 129 g+dk + + + +++g++ktLvfy+grap+g+ktdW+mheyrle Sobic.006G092100.1.p 98 GRDKCIRT-SYRKIGMRKTLVFYRGRAPHGQKTDWIMHEYRLE 139 *******9.8999****************************85 PP |
Protein Features ? help Back to Top | ||||||
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Database | Entry ID | E-value | Start | End | InterPro ID | Description |
SuperFamily | SSF101941 | 2.35E-60 | 5 | 161 | IPR003441 | NAC domain |
PROSITE profile | PS51005 | 57.91 | 10 | 161 | IPR003441 | NAC domain |
Pfam | PF02365 | 1.6E-27 | 11 | 138 | IPR003441 | NAC domain |
Gene Ontology ? help Back to Top | ||||||
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GO Term | GO Category | GO Description | ||||
GO:0009834 | Biological Process | plant-type secondary cell wall biogenesis | ||||
GO:0045893 | Biological Process | positive regulation of transcription, DNA-templated | ||||
GO:0048829 | Biological Process | root cap development | ||||
GO:0005634 | Cellular Component | nucleus | ||||
GO:0003677 | Molecular Function | DNA binding |
Sequence ? help Back to Top |
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Protein Sequence Length: 345 aa Download sequence Send to blast |
MAAFSSSNGV PPGFRFHPTD EELLLYYLKK KVGFEKFDLE VIREVDLNKI EPWELQERCR 60 IGSAPQNEWY FFSHKDRKYP TGSRTNRATT AGFWKATGRD KCIRTSYRKI GMRKTLVFYR 120 GRAPHGQKTD WIMHEYRLED ADDAQGGTSE DGWVVCRVFK KKCFFKIGGG EGSTSQGADA 180 GGHLAVSPPP LGGHHDHARA AMAYMHPHPY YHHASSYYSQ MQAPAPPHAA AYSHHVQVQD 240 LLTNHRPTVD DGAGTAGYDF SGLPVEHHPG GGLDVGSSDG VATDGGGGQL AGEGRDQATG 300 AAAEQWQAID GFSNGGSAAV QQMTGAMSSG AQRGGEMDLW GYGR* |
3D Structure ? help Back to Top | ||||||
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PDB ID | Evalue | Query Start | Query End | Hit Start | Hit End | Description |
1ut4_A | 2e-54 | 10 | 162 | 17 | 166 | NO APICAL MERISTEM PROTEIN |
1ut4_B | 2e-54 | 10 | 162 | 17 | 166 | NO APICAL MERISTEM PROTEIN |
1ut7_A | 2e-54 | 10 | 162 | 17 | 166 | NO APICAL MERISTEM PROTEIN |
1ut7_B | 2e-54 | 10 | 162 | 17 | 166 | NO APICAL MERISTEM PROTEIN |
4dul_A | 2e-54 | 10 | 162 | 17 | 166 | NAC domain-containing protein 19 |
4dul_B | 2e-54 | 10 | 162 | 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: Detectable in lateral root development when they reach 10 mm long. {ECO:0000269|PubMed:20197506}. | |||||
Uniprot | TISSUE SPECIFICITY: Expressed throughout the root cap, in both columella (COL) and lateral root cap (LRC) cells, with higher levels in the COL-adjoining LRC than the upper LRC. Also present at low levels expression in the tips of cotyledons and the cotyledon vasculature, as weel as in vasculature of the first pair of true leaves and at the hydathodes. {ECO:0000269|PubMed:20197506}. |
Functional Description ? help Back to Top | ||||||
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Source | Description | |||||
UniProt | Transcription activator. Together with BRN1 and SMB, regulates cellular maturation of root cap. Promotes the expression of genes involved in secondary cell walls (SCW) biosynthesis. {ECO:0000269|PubMed:20197506}. |
Binding Motif ? help Back to Top | |||
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Motif ID | Method | Source | Motif file |
MP00431 | DAP | Transfer from AT4G10350 | Download |
Cis-element ? help Back to Top | |
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Source | Link |
PlantRegMap | Sobic.006G092100.1.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 | EU971542 | 0.0 | EU971542.1 Zea mays clone 366845 NAC domain-containing protein 76 mRNA, complete cds. |
Annotation -- Protein ? help Back to Top | |||||||
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Source | Hit ID | E-value | Description | ||||
Refseq | XP_002447906.1 | 0.0 | protein BEARSKIN2 | ||||
Swissprot | Q9SV87 | 1e-113 | BRN2_ARATH; Protein BEARSKIN2 | ||||
TrEMBL | C5Y965 | 0.0 | C5Y965_SORBI; Uncharacterized protein | ||||
STRING | Sb06g017720.1 | 0.0 | (Sorghum bicolor) |
Orthologous Group ? help Back to Top | |||
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Lineage | Orthologous Group ID | Taxa Number | Gene Number |
Monocots | OGMP9297 | 30 | 46 | Representative plant | OGRP17 | 15 | 800 |
Best hit in Arabidopsis thaliana ? help Back to Top | ||||||
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Hit ID | E-value | Description | ||||
AT4G10350.1 | 2e-90 | NAC domain containing protein 70 |
Link Out ? help Back to Top | |
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Phytozome | Sobic.006G092100.1.p |
Entrez Gene | 8075854 |
Publications ? help Back to Top | |||
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