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addgene rrid addgene 20856 software  (Addgene inc)


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    Structured Review

    Addgene inc addgene rrid addgene 20856 software
    Addgene Rrid Addgene 20856 Software, supplied by Addgene inc, used in various techniques. Bioz Stars score: 93/100, based on 33 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/pdisplay+bira+er/pDisplay-BirA-ER+(Plasmid+%2320856)/pm40650904-244-20-21
    Average 93 stars, based on 33 article reviews
    addgene rrid addgene 20856 software - by Bioz Stars, 2026-10
    93/100 stars

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    Related Articles

    Expressing:

    Article Title: Molecular parameters governing antibody FcγR signaling and effector functions in the context of HIV envelope
    Article Snippet: Colonies were seeded in wells of a tissue culture-treated 96 well plate (Corning 3595) with 293T selection medium and expanded as necessary. .. 1L of Freestyle 293-F cells (Gibco R79007 ) at a density of 1 million cells/mL in Freestyle Expression Medium (Gibco 12338018) was co-transfected with 350μg of the respective sRT plasmid, 150ug of Furin, and 190μg of pDisplay-BirA-ER (Addgene #20856) using 2mL of 40K PEI (Polysciences 49553937). ..

    Article Title: Molecular parameters governing antibody FcγR signaling and effector functions in the context of HIV envelope.
    Article Snippet: .. A second round of subcloning was performed on the best first-round subclones via fluorescence-activated cell sorting (FACS, BD FACSMelody), gating on the top 1% of double-positive cells. sRT production 1L of Freestyle 293-F cells (Gibco R79007) at a density of 1 million cells/mL in Freestyle Expression Medium (Gibco 12338018) was co-transfected with 350mg of the respective sRT plasmid, 150mg of Furin, and 190mg of pDisplay-BirA-ER (Addgene #20856) using 2mL of 40K PEI (Polysciences 49553937). ..

    Article Title: Utility of protein-protein binding surfaces composed of anti-parallel alpha-helices and beta-sheets selected by phage display.
    Article Snippet: .. For production of C-terminally biotinylated proteins, a plasmid encoding the bait-AviTag-8xHis-1D4 fusion and pDisplay-BirA-ER, a mammalian expression vector encoding an ER-localized derivative of BirA (Addgene #20856; Howarth and Ting, 2008), were co-transfected into HEK293T cells. ..

    Article Title: Structural insight into rabies virus neutralization revealed by an engineered antibody scaffold.
    Article Snippet: .. Protein preparation for Biolayer interferometry The wild-type RABV-G domain III construct encoding residues 32–59 and 181–259 (GenBank: AAC34683.1) connected by a linker composed of three glycines, with a C-terminal Avitag (sequence: GLNDIFEAQKIEWHE) before C-terminal 63 His tag, and its K226E mutant, were designed and commercially obtained as codon-optimized synthetic cDNA from GeneArt (Thermo Fisher Scientific), and cloned into the pHL-sec mammalian expression vector (Addgene #99845).55 The domain III expression plasmid was transiently co-transfected with pDisplay-BirA-ER (Addgene #20856)57 plasmid for in vivo biotinylation of the Avitag. .. Transfections were performed using Expifectamine as the transfection reagent (Gibco, ThermoFisher Scientific, catalog no.14635) and 50 mg domain III expression plasmid DNA and 15 mg pDisplay-BirA-ER DNA to transfect 150 3 106 cells in 50 mL culture volume.

    Article Title: Utility of protein–protein binding surfaces composed of anti-parallel alpha-helices and beta-sheets selected by phage display
    Article Snippet: .. For production of C-terminally biotinylated proteins, a plasmid encoding the bait-AviTag-8xHis-1D4 fusion and pDisplay-BirA-ER, a mammalian expression vector encoding an ER-localized derivative of BirA (Addgene #20856; ( )), were co-transfected into HEK293T cells. ..

    Plasmid Preparation:

    Article Title: Molecular parameters governing antibody FcγR signaling and effector functions in the context of HIV envelope
    Article Snippet: Colonies were seeded in wells of a tissue culture-treated 96 well plate (Corning 3595) with 293T selection medium and expanded as necessary. .. 1L of Freestyle 293-F cells (Gibco R79007 ) at a density of 1 million cells/mL in Freestyle Expression Medium (Gibco 12338018) was co-transfected with 350μg of the respective sRT plasmid, 150ug of Furin, and 190μg of pDisplay-BirA-ER (Addgene #20856) using 2mL of 40K PEI (Polysciences 49553937). ..

    Article Title: Molecular parameters governing antibody FcγR signaling and effector functions in the context of HIV envelope.
    Article Snippet: .. A second round of subcloning was performed on the best first-round subclones via fluorescence-activated cell sorting (FACS, BD FACSMelody), gating on the top 1% of double-positive cells. sRT production 1L of Freestyle 293-F cells (Gibco R79007) at a density of 1 million cells/mL in Freestyle Expression Medium (Gibco 12338018) was co-transfected with 350mg of the respective sRT plasmid, 150mg of Furin, and 190mg of pDisplay-BirA-ER (Addgene #20856) using 2mL of 40K PEI (Polysciences 49553937). ..

    Article Title: Antibodies capable of binding to the spike protein of coronavirus SARS-CoV-2
    Article Snippet: Production of RBDs Plasmids encoding RBDs were transfected into Expi293FTM Cells (ThermoFisher) by PEI, cultured in FreeStyleTM 293 Expression Medium (ThermoFisher) at 30° C. with 8% CO2 for 4 days. .. To express biotinylated RBDs, the RBD-BAP plasmid was co-transfected with pDisplay-BirA-ER (Addgene plasmid 20856; coding for an ER-localized biotin ligase), in the presence of 0.8 mM D-biotin (Sigma-Aldrich). .. Production of BA.2.75 RBDs Plasmids encoding RBDs were transfected into Expi293FTM Cells (ThermoFisher) by PEI, cultured in FreeStyleTM 293 Expression Medium (ThermoFisher) at 37° C. for 1 day followed by 30° C. for 3 days with 8% CO2.

    Article Title: Utility of protein-protein binding surfaces composed of anti-parallel alpha-helices and beta-sheets selected by phage display.
    Article Snippet: .. For production of C-terminally biotinylated proteins, a plasmid encoding the bait-AviTag-8xHis-1D4 fusion and pDisplay-BirA-ER, a mammalian expression vector encoding an ER-localized derivative of BirA (Addgene #20856; Howarth and Ting, 2008), were co-transfected into HEK293T cells. ..

    Article Title: Structural insight into rabies virus neutralization revealed by an engineered antibody scaffold.
    Article Snippet: .. Protein preparation for Biolayer interferometry The wild-type RABV-G domain III construct encoding residues 32–59 and 181–259 (GenBank: AAC34683.1) connected by a linker composed of three glycines, with a C-terminal Avitag (sequence: GLNDIFEAQKIEWHE) before C-terminal 63 His tag, and its K226E mutant, were designed and commercially obtained as codon-optimized synthetic cDNA from GeneArt (Thermo Fisher Scientific), and cloned into the pHL-sec mammalian expression vector (Addgene #99845).55 The domain III expression plasmid was transiently co-transfected with pDisplay-BirA-ER (Addgene #20856)57 plasmid for in vivo biotinylation of the Avitag. .. Transfections were performed using Expifectamine as the transfection reagent (Gibco, ThermoFisher Scientific, catalog no.14635) and 50 mg domain III expression plasmid DNA and 15 mg pDisplay-BirA-ER DNA to transfect 150 3 106 cells in 50 mL culture volume.

    Article Title: Utility of protein–protein binding surfaces composed of anti-parallel alpha-helices and beta-sheets selected by phage display
    Article Snippet: .. For production of C-terminally biotinylated proteins, a plasmid encoding the bait-AviTag-8xHis-1D4 fusion and pDisplay-BirA-ER, a mammalian expression vector encoding an ER-localized derivative of BirA (Addgene #20856; ( )), were co-transfected into HEK293T cells. ..

    Subcloning:

    Article Title: Molecular parameters governing antibody FcγR signaling and effector functions in the context of HIV envelope.
    Article Snippet: .. A second round of subcloning was performed on the best first-round subclones via fluorescence-activated cell sorting (FACS, BD FACSMelody), gating on the top 1% of double-positive cells. sRT production 1L of Freestyle 293-F cells (Gibco R79007) at a density of 1 million cells/mL in Freestyle Expression Medium (Gibco 12338018) was co-transfected with 350mg of the respective sRT plasmid, 150mg of Furin, and 190mg of pDisplay-BirA-ER (Addgene #20856) using 2mL of 40K PEI (Polysciences 49553937). ..

    Fluorescence:

    Article Title: Molecular parameters governing antibody FcγR signaling and effector functions in the context of HIV envelope.
    Article Snippet: .. A second round of subcloning was performed on the best first-round subclones via fluorescence-activated cell sorting (FACS, BD FACSMelody), gating on the top 1% of double-positive cells. sRT production 1L of Freestyle 293-F cells (Gibco R79007) at a density of 1 million cells/mL in Freestyle Expression Medium (Gibco 12338018) was co-transfected with 350mg of the respective sRT plasmid, 150mg of Furin, and 190mg of pDisplay-BirA-ER (Addgene #20856) using 2mL of 40K PEI (Polysciences 49553937). ..

    FACS:

    Article Title: Molecular parameters governing antibody FcγR signaling and effector functions in the context of HIV envelope.
    Article Snippet: .. A second round of subcloning was performed on the best first-round subclones via fluorescence-activated cell sorting (FACS, BD FACSMelody), gating on the top 1% of double-positive cells. sRT production 1L of Freestyle 293-F cells (Gibco R79007) at a density of 1 million cells/mL in Freestyle Expression Medium (Gibco 12338018) was co-transfected with 350mg of the respective sRT plasmid, 150mg of Furin, and 190mg of pDisplay-BirA-ER (Addgene #20856) using 2mL of 40K PEI (Polysciences 49553937). ..

    Construct:

    Article Title: Structural insight into rabies virus neutralization revealed by an engineered antibody scaffold.
    Article Snippet: .. Protein preparation for Biolayer interferometry The wild-type RABV-G domain III construct encoding residues 32–59 and 181–259 (GenBank: AAC34683.1) connected by a linker composed of three glycines, with a C-terminal Avitag (sequence: GLNDIFEAQKIEWHE) before C-terminal 63 His tag, and its K226E mutant, were designed and commercially obtained as codon-optimized synthetic cDNA from GeneArt (Thermo Fisher Scientific), and cloned into the pHL-sec mammalian expression vector (Addgene #99845).55 The domain III expression plasmid was transiently co-transfected with pDisplay-BirA-ER (Addgene #20856)57 plasmid for in vivo biotinylation of the Avitag. .. Transfections were performed using Expifectamine as the transfection reagent (Gibco, ThermoFisher Scientific, catalog no.14635) and 50 mg domain III expression plasmid DNA and 15 mg pDisplay-BirA-ER DNA to transfect 150 3 106 cells in 50 mL culture volume.

    Sequencing:

    Article Title: Structural insight into rabies virus neutralization revealed by an engineered antibody scaffold.
    Article Snippet: .. Protein preparation for Biolayer interferometry The wild-type RABV-G domain III construct encoding residues 32–59 and 181–259 (GenBank: AAC34683.1) connected by a linker composed of three glycines, with a C-terminal Avitag (sequence: GLNDIFEAQKIEWHE) before C-terminal 63 His tag, and its K226E mutant, were designed and commercially obtained as codon-optimized synthetic cDNA from GeneArt (Thermo Fisher Scientific), and cloned into the pHL-sec mammalian expression vector (Addgene #99845).55 The domain III expression plasmid was transiently co-transfected with pDisplay-BirA-ER (Addgene #20856)57 plasmid for in vivo biotinylation of the Avitag. .. Transfections were performed using Expifectamine as the transfection reagent (Gibco, ThermoFisher Scientific, catalog no.14635) and 50 mg domain III expression plasmid DNA and 15 mg pDisplay-BirA-ER DNA to transfect 150 3 106 cells in 50 mL culture volume.

    Mutagenesis:

    Article Title: Structural insight into rabies virus neutralization revealed by an engineered antibody scaffold.
    Article Snippet: .. Protein preparation for Biolayer interferometry The wild-type RABV-G domain III construct encoding residues 32–59 and 181–259 (GenBank: AAC34683.1) connected by a linker composed of three glycines, with a C-terminal Avitag (sequence: GLNDIFEAQKIEWHE) before C-terminal 63 His tag, and its K226E mutant, were designed and commercially obtained as codon-optimized synthetic cDNA from GeneArt (Thermo Fisher Scientific), and cloned into the pHL-sec mammalian expression vector (Addgene #99845).55 The domain III expression plasmid was transiently co-transfected with pDisplay-BirA-ER (Addgene #20856)57 plasmid for in vivo biotinylation of the Avitag. .. Transfections were performed using Expifectamine as the transfection reagent (Gibco, ThermoFisher Scientific, catalog no.14635) and 50 mg domain III expression plasmid DNA and 15 mg pDisplay-BirA-ER DNA to transfect 150 3 106 cells in 50 mL culture volume.

    Clone Assay:

    Article Title: Structural insight into rabies virus neutralization revealed by an engineered antibody scaffold.
    Article Snippet: .. Protein preparation for Biolayer interferometry The wild-type RABV-G domain III construct encoding residues 32–59 and 181–259 (GenBank: AAC34683.1) connected by a linker composed of three glycines, with a C-terminal Avitag (sequence: GLNDIFEAQKIEWHE) before C-terminal 63 His tag, and its K226E mutant, were designed and commercially obtained as codon-optimized synthetic cDNA from GeneArt (Thermo Fisher Scientific), and cloned into the pHL-sec mammalian expression vector (Addgene #99845).55 The domain III expression plasmid was transiently co-transfected with pDisplay-BirA-ER (Addgene #20856)57 plasmid for in vivo biotinylation of the Avitag. .. Transfections were performed using Expifectamine as the transfection reagent (Gibco, ThermoFisher Scientific, catalog no.14635) and 50 mg domain III expression plasmid DNA and 15 mg pDisplay-BirA-ER DNA to transfect 150 3 106 cells in 50 mL culture volume.

    In Vivo:

    Article Title: Structural insight into rabies virus neutralization revealed by an engineered antibody scaffold.
    Article Snippet: .. Protein preparation for Biolayer interferometry The wild-type RABV-G domain III construct encoding residues 32–59 and 181–259 (GenBank: AAC34683.1) connected by a linker composed of three glycines, with a C-terminal Avitag (sequence: GLNDIFEAQKIEWHE) before C-terminal 63 His tag, and its K226E mutant, were designed and commercially obtained as codon-optimized synthetic cDNA from GeneArt (Thermo Fisher Scientific), and cloned into the pHL-sec mammalian expression vector (Addgene #99845).55 The domain III expression plasmid was transiently co-transfected with pDisplay-BirA-ER (Addgene #20856)57 plasmid for in vivo biotinylation of the Avitag. .. Transfections were performed using Expifectamine as the transfection reagent (Gibco, ThermoFisher Scientific, catalog no.14635) and 50 mg domain III expression plasmid DNA and 15 mg pDisplay-BirA-ER DNA to transfect 150 3 106 cells in 50 mL culture volume.

    Polymerase Chain Reaction:

    Article Title: Activation of goblet-cell stress sensor IRE1β is controlled by the mucin chaperone AGR2.
    Article Snippet: All indicated mutations were introduced with the QuickChange protocol (Agilent), and sequences were verified by Sanger sequencing. .. BirA was PCR-amplified from pDisplay-BirA-ER (Alice Ting lab, Addgene #20856) with AttB sites as described above and transferred to pDEST12.2 or pLenti-DEST-EF1A-Hygro. ..



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    Figure 2. Crystal structure of the CR57 diabody in complex with RABV-G <t>domain</t> <t>III</t> (A) Domain schematic of RABV-G shows the organization of the glycoprotein, including the signal peptide (SP), domains I–IV (colored red, blue, orange, and yellow, respectively), ectodomain C-terminus (gray), transmembrane domain (TM), and intraviral domain (black). The schematic was produced using the DOG software.37 Composition of the domain III construct used in this study is presented alongside an illustration of domain III organization in the context of the trimeric prefusion RABV-G spike (PDB: 7U9G). (B) Crystal structure of the CR57 diabody in complex with RABV-G domain III, resolved at 2.70 A˚ resolution. The lower panel includes a magnified view of the CR57 diabody-RABV-G domain III interface, where key interacting residues are labeled and shown as sticks with oxygen atoms in red and nitrogen atoms in blue.
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    Image Search Results


    Figure 2. Crystal structure of the CR57 diabody in complex with RABV-G domain III (A) Domain schematic of RABV-G shows the organization of the glycoprotein, including the signal peptide (SP), domains I–IV (colored red, blue, orange, and yellow, respectively), ectodomain C-terminus (gray), transmembrane domain (TM), and intraviral domain (black). The schematic was produced using the DOG software.37 Composition of the domain III construct used in this study is presented alongside an illustration of domain III organization in the context of the trimeric prefusion RABV-G spike (PDB: 7U9G). (B) Crystal structure of the CR57 diabody in complex with RABV-G domain III, resolved at 2.70 A˚ resolution. The lower panel includes a magnified view of the CR57 diabody-RABV-G domain III interface, where key interacting residues are labeled and shown as sticks with oxygen atoms in red and nitrogen atoms in blue.

    Journal: Structure (London, England : 1993)

    Article Title: Structural insight into rabies virus neutralization revealed by an engineered antibody scaffold.

    doi: 10.1016/j.str.2024.10.002

    Figure Lengend Snippet: Figure 2. Crystal structure of the CR57 diabody in complex with RABV-G domain III (A) Domain schematic of RABV-G shows the organization of the glycoprotein, including the signal peptide (SP), domains I–IV (colored red, blue, orange, and yellow, respectively), ectodomain C-terminus (gray), transmembrane domain (TM), and intraviral domain (black). The schematic was produced using the DOG software.37 Composition of the domain III construct used in this study is presented alongside an illustration of domain III organization in the context of the trimeric prefusion RABV-G spike (PDB: 7U9G). (B) Crystal structure of the CR57 diabody in complex with RABV-G domain III, resolved at 2.70 A˚ resolution. The lower panel includes a magnified view of the CR57 diabody-RABV-G domain III interface, where key interacting residues are labeled and shown as sticks with oxygen atoms in red and nitrogen atoms in blue.

    Article Snippet: Protein preparation for Biolayer interferometry The wild-type RABV-G domain III construct encoding residues 32–59 and 181–259 (GenBank: AAC34683.1) connected by a linker composed of three glycines, with a C-terminal Avitag (sequence: GLNDIFEAQKIEWHE) before C-terminal 63 His tag, and its K226E mutant, were designed and commercially obtained as codon-optimized synthetic cDNA from GeneArt (Thermo Fisher Scientific), and cloned into the pHL-sec mammalian expression vector (Addgene #99845).55 The domain III expression plasmid was transiently co-transfected with pDisplay-BirA-ER (Addgene #20856)57 plasmid for in vivo biotinylation of the Avitag.

    Techniques: Produced, Software, Construct, Labeling

    Figure 3. Comparative analysis of neutralizing antibody epitopes on the RABV-G spike (A) Superposition of CR57 diabody-RABV-G domain III complex structure (for clarity, only a single CR57 Fv is shown) with a previously reported prefusion RABV-G spike (PDB: 7U9G15). (B) Surface representation of the spike (side and top views), displaying the epitope footprints of antibodies targeting domain III, which comprise CR57 (delineated in cyan), RVC20 (dark green), and 1112-1 (light green), and epitopes of antibodies targeting domains I and II, which comprise 523-11 (white), 17C7 (purple), and RVA122 (pink). (C) A close-up of the key interacting region between domain III and mAbs CR57; the same region is also shown for mAbs RVC20 and 1112-1 interfaces. RABV-G domain III is shown in orange, with the peptide KLCGVL highlighted by a dashed circle. CDRH3 is shown as a bold loop and CDRH3 residues interacting with the KLCGVL peptide are labeled and shown as sticks with oxygen atoms in red and nitrogen atoms in blue.

    Journal: Structure (London, England : 1993)

    Article Title: Structural insight into rabies virus neutralization revealed by an engineered antibody scaffold.

    doi: 10.1016/j.str.2024.10.002

    Figure Lengend Snippet: Figure 3. Comparative analysis of neutralizing antibody epitopes on the RABV-G spike (A) Superposition of CR57 diabody-RABV-G domain III complex structure (for clarity, only a single CR57 Fv is shown) with a previously reported prefusion RABV-G spike (PDB: 7U9G15). (B) Surface representation of the spike (side and top views), displaying the epitope footprints of antibodies targeting domain III, which comprise CR57 (delineated in cyan), RVC20 (dark green), and 1112-1 (light green), and epitopes of antibodies targeting domains I and II, which comprise 523-11 (white), 17C7 (purple), and RVA122 (pink). (C) A close-up of the key interacting region between domain III and mAbs CR57; the same region is also shown for mAbs RVC20 and 1112-1 interfaces. RABV-G domain III is shown in orange, with the peptide KLCGVL highlighted by a dashed circle. CDRH3 is shown as a bold loop and CDRH3 residues interacting with the KLCGVL peptide are labeled and shown as sticks with oxygen atoms in red and nitrogen atoms in blue.

    Article Snippet: Protein preparation for Biolayer interferometry The wild-type RABV-G domain III construct encoding residues 32–59 and 181–259 (GenBank: AAC34683.1) connected by a linker composed of three glycines, with a C-terminal Avitag (sequence: GLNDIFEAQKIEWHE) before C-terminal 63 His tag, and its K226E mutant, were designed and commercially obtained as codon-optimized synthetic cDNA from GeneArt (Thermo Fisher Scientific), and cloned into the pHL-sec mammalian expression vector (Addgene #99845).55 The domain III expression plasmid was transiently co-transfected with pDisplay-BirA-ER (Addgene #20856)57 plasmid for in vivo biotinylation of the Avitag.

    Techniques: Labeling

    Figure 4. CR57 binding overlaps with a putative nAChR-interacting region and abrogates spike-mediated fusion (A) Superposition of CR57RABV-G domain III complex onto the structure of the trimeric prefusion spike (PDB: 7U9G,15 for clarity only a single CR57 Fv is displayed). (A) and (B) illustrate the occlusion of the nAChR-binding RABV-G peptide by CR57 Fv. The nAChR binding region is composed of RABV-G residues 175–203 and is colored dark magenta, with the minimal peptide implicated for nAChR binding, residues 187–199, highlighted in magenta.

    Journal: Structure (London, England : 1993)

    Article Title: Structural insight into rabies virus neutralization revealed by an engineered antibody scaffold.

    doi: 10.1016/j.str.2024.10.002

    Figure Lengend Snippet: Figure 4. CR57 binding overlaps with a putative nAChR-interacting region and abrogates spike-mediated fusion (A) Superposition of CR57RABV-G domain III complex onto the structure of the trimeric prefusion spike (PDB: 7U9G,15 for clarity only a single CR57 Fv is displayed). (A) and (B) illustrate the occlusion of the nAChR-binding RABV-G peptide by CR57 Fv. The nAChR binding region is composed of RABV-G residues 175–203 and is colored dark magenta, with the minimal peptide implicated for nAChR binding, residues 187–199, highlighted in magenta.

    Article Snippet: Protein preparation for Biolayer interferometry The wild-type RABV-G domain III construct encoding residues 32–59 and 181–259 (GenBank: AAC34683.1) connected by a linker composed of three glycines, with a C-terminal Avitag (sequence: GLNDIFEAQKIEWHE) before C-terminal 63 His tag, and its K226E mutant, were designed and commercially obtained as codon-optimized synthetic cDNA from GeneArt (Thermo Fisher Scientific), and cloned into the pHL-sec mammalian expression vector (Addgene #99845).55 The domain III expression plasmid was transiently co-transfected with pDisplay-BirA-ER (Addgene #20856)57 plasmid for in vivo biotinylation of the Avitag.

    Techniques: Binding Assay