Ashed with 10 mM HEPES three times prior to elution of proteins

Ashed with 10 mM HEPES three times prior to elution of proteins using SDS loading buffer (10 SDS, 0.6 M DTT, 30 glycerol, 0.012 bromophenol blue, at 90uC, 5 min).Cell Culture and TransfectionsCell culture and transfection methods have been previously described [6]. For stable transfections, Nlrp1b-expressing cell lines were derived by selection with hygromycin B (500 mg/ml; Invitrogen) for 15 days. Western blot with anti-HA antibody was MedChemExpress Calcitonin (salmon) performed to identify expression levels. Bone marrow-derived macrophages (BMDMs) were generated from marrow obtained from Balb/cJ or Nod/LtJ mice (Jackson Laboratories, Bar Harbor, ME) as previously described [13].Mass SpectrometryThe molecular masses of the BALB118 and NOD118 proteins and their cleavage products were determined by liquid chromatography-electrospray mass spectrometry using an HP/Agilent 1100 MSD instrument (Hewlett Packard, Palo Alto, CA) at the NIDDK core facility, Bethesda, MD.ConstructscDNA sequences for BALB and NOD mNlrp1b were synthesized by GeneArt Life Technologies (Grand Island, NY) and were cloned into the pIREShyg3 vector using Nhe1 and Xma1 sites. BALB118 and NOD118 sequences were synthesized by GeneArt Life Technologies and cloned along with added C-terminal His6 tags into the pGEX-KG vector using BamHI and EcoRI sites. Mutagenesis was performed using the QuikChange system (Agilent Technologies, La Jolla, CA) and sequencing was performed by Macrogen (Rockville, MD).Supporting InformationFigure S1 Canonical cleavage of full length mouse Nlrp1b proteins by LT. HT1080 cells expressing HAtagged mouse Nlrp1b (BALB or NOD) proteins were first treated with LF+PA (1 mg/ml, each) for 3 h. IP (anti-HA pulldown) was then performed on lysates followed by anti-HA Western blotting. (TIF)Cleavage AssaysTo assess Nlrp1 cleavage in cell lysates, cells were grown to confluence and lysed in sucrose buffer (250 mM sucrose, 10 mM HEPES, 0.05 M EDTA, 0.2 Nonidet-P40) containing ZnCl2 (1 mM) and NaCl (5 mM), followed by LF treatment at 37uC for varying times. Alternatively, cells were first treated with LT at 1 mg/ml for 5 h (canonical cleavage), followed by lysis in sucrose buffer containing 5 ng/ml LF inhibitor PT-168541-1 (gift of Alan Johnson, Panthera Biopharma). Cleavage reactions were analyzed by Western blot (WB) or immunoprecipitatoin (IP) followed by WB. For in vitro cleavage assays with purified proteins, BALB118 and NOD118 were incubated for varying times at 37uC with purified LF at varying concentrations in the presence of ZnCl2 (1 mM) and NaCl (5 mM). Samples were separated on an 8-25AcknowledgmentsWe thank Devorah Crown for bone marrow isolation and D. Eric Anderson for assistance with mass spectrometry.Author ContributionsConceived and designed the experiments: KAH JLL RF ZLN SHL MM. Performed the experiments: KAH JLL RF NM MM. Analyzed the data: KAH JLL RF ZLN NM SHL MM. Contributed reagents/materials/ analysis tools: RF ZLN IS SL SHL. Wrote the paper: KAH SHL MM.
LEPA is one of the most conserved proteins, and it has the unexpected ability to back-translocate tRNAs on the ribosome [1]. LEPA homologs are highly conserved in terms of both their structure and their amino acid sequence, and they are found in bacteria, mitochondria and chloroplasts, but not in archaea or in the cytoplasm of eukaryotes [1]. Based on the domain definition of EF-G, LEPA can be divided into five domains, four out of the five EF-G domains , II, III, and V re MedChemExpress PD-168393 present in LEPA. Domain IV and the G9 subdoma.Ashed with 10 mM HEPES three times prior to elution of proteins using SDS loading buffer (10 SDS, 0.6 M DTT, 30 glycerol, 0.012 bromophenol blue, at 90uC, 5 min).Cell Culture and TransfectionsCell culture and transfection methods have been previously described [6]. For stable transfections, Nlrp1b-expressing cell lines were derived by selection with hygromycin B (500 mg/ml; Invitrogen) for 15 days. Western blot with anti-HA antibody was performed to identify expression levels. Bone marrow-derived macrophages (BMDMs) were generated from marrow obtained from Balb/cJ or Nod/LtJ mice (Jackson Laboratories, Bar Harbor, ME) as previously described [13].Mass SpectrometryThe molecular masses of the BALB118 and NOD118 proteins and their cleavage products were determined by liquid chromatography-electrospray mass spectrometry using an HP/Agilent 1100 MSD instrument (Hewlett Packard, Palo Alto, CA) at the NIDDK core facility, Bethesda, MD.ConstructscDNA sequences for BALB and NOD mNlrp1b were synthesized by GeneArt Life Technologies (Grand Island, NY) and were cloned into the pIREShyg3 vector using Nhe1 and Xma1 sites. BALB118 and NOD118 sequences were synthesized by GeneArt Life Technologies and cloned along with added C-terminal His6 tags into the pGEX-KG vector using BamHI and EcoRI sites. Mutagenesis was performed using the QuikChange system (Agilent Technologies, La Jolla, CA) and sequencing was performed by Macrogen (Rockville, MD).Supporting InformationFigure S1 Canonical cleavage of full length mouse Nlrp1b proteins by LT. HT1080 cells expressing HAtagged mouse Nlrp1b (BALB or NOD) proteins were first treated with LF+PA (1 mg/ml, each) for 3 h. IP (anti-HA pulldown) was then performed on lysates followed by anti-HA Western blotting. (TIF)Cleavage AssaysTo assess Nlrp1 cleavage in cell lysates, cells were grown to confluence and lysed in sucrose buffer (250 mM sucrose, 10 mM HEPES, 0.05 M EDTA, 0.2 Nonidet-P40) containing ZnCl2 (1 mM) and NaCl (5 mM), followed by LF treatment at 37uC for varying times. Alternatively, cells were first treated with LT at 1 mg/ml for 5 h (canonical cleavage), followed by lysis in sucrose buffer containing 5 ng/ml LF inhibitor PT-168541-1 (gift of Alan Johnson, Panthera Biopharma). Cleavage reactions were analyzed by Western blot (WB) or immunoprecipitatoin (IP) followed by WB. For in vitro cleavage assays with purified proteins, BALB118 and NOD118 were incubated for varying times at 37uC with purified LF at varying concentrations in the presence of ZnCl2 (1 mM) and NaCl (5 mM). Samples were separated on an 8-25AcknowledgmentsWe thank Devorah Crown for bone marrow isolation and D. Eric Anderson for assistance with mass spectrometry.Author ContributionsConceived and designed the experiments: KAH JLL RF ZLN SHL MM. Performed the experiments: KAH JLL RF NM MM. Analyzed the data: KAH JLL RF ZLN NM SHL MM. Contributed reagents/materials/ analysis tools: RF ZLN IS SL SHL. Wrote the paper: KAH SHL MM.
LEPA is one of the most conserved proteins, and it has the unexpected ability to back-translocate tRNAs on the ribosome [1]. LEPA homologs are highly conserved in terms of both their structure and their amino acid sequence, and they are found in bacteria, mitochondria and chloroplasts, but not in archaea or in the cytoplasm of eukaryotes [1]. Based on the domain definition of EF-G, LEPA can be divided into five domains, four out of the five EF-G domains , II, III, and V re present in LEPA. Domain IV and the G9 subdoma.