SYBR Green Assay:Article Title: Zn-regulated GTPase metalloprotein activator 1 modulates vertebrate zinc homeostasis.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER OPTIMA Nitric Acid Fisher CAT#A467-500 Ultratrace Hydrogen Peroxide Sigma CAT#95321 UltraPure Water Invitrogen CAT#10977-023 ARISTAR ICP Standard Mix VWR CAT#BDH82026-108 Sodium Cacodylate Trihydrate Electron Microscopy Sciences CAT#12310 Glutaraldehyde Electron Microscopy Sciences CAT#16310 Tannic Acid Electron Microscopy Sciences CAT#21700 Osmium Tetroxide Electron Microscopy Sciences CAT#19110 Uranyl Acetate Electron Microscopy Sciences CAT#22400 Propylene Oxide Electron Microscopy Sciences CAT#20411 Quetol 651 Electron Microscopy Sciences CAT#20440 ERL4221 Electron Microscopy Sciences CAT#15004 Nonenyl Succinic Anhydride Electron Microscopy Sciences CAT#19050 DER 736 Electron Microscopy Sciences CAT#13000 Benzyldimethylamine Electron Microscopy Sciences CAT#11400 Lead Nitrate Electron Microscopy Sciences CAT#17900 Sodium Citrate Electron Microscopy Sciences CAT#21140 Ethanol Decon Labs CAT#2716 GTP Sigma CAT#10106399001 NADH Sigma CAT#N8129 phosphoenolpyruvate Sigma CAT#86007 Pyruvate kinase / lactate dehydrogenase Sigma CAT#P0294 TCEP Chem-Impex CAT#23004 Quin-2 Sigma CAT#08520 Mag-fura-2 Invitrogen CAT#M1290 EDTA Alfa Aesar CAT#A173850B Chelex Bio-Rad CAT#141253 ZnCl2 Sigma CAT#208086-100G Magnesium chloride Fisher CAT#AA1079714 Ninhydrin Sigma CAT#151173-10G Malachite green oxalate Fisher CAT#229780250 Ammonium molybdate Sigma CAT#277908-5G Phosphate Fluka CAT#HONCE3039-100ML Geneticin sulfate G418 Fisher CAT#10131035 Lipofectamine 3000 Invitrogen CAT#L3000-008 Insulin Sigma CAT#SLCF5002 Fetal Bovine Serum (FBS) R and D Systems CAT#S11150 Hepes Fisher CAT#BP310-500 Lysozyme ThermoFisher CAT#89833 HisPur Cobalt Resin ThermoFisher CAT#89964 Maltose Sigma CAT#63423-100mL HRV 3C Protease Pierce CAT#88947 Nitrilotriacetic acid (NTA) Sigma CAT#9877 RIPA ThermoFisher CAT#89900 Halt Protease Inhibitor ThermoFisher CAT#78442 Tris/Glycine/SDS Buffer Bio-Rad CAT#1610732 Ponceau S Solution Sigma CAT#P7170 Odyssey Blocking Buffer Li-Cor CAT#927-40000 Glacial Acetic acid Millipore CAT#AX0074-2 (Continued on next page) ll Cell 185, 2148–2163.e1–e14, June 9, 2022 e2 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER Citric Acid Sigma CAT#Z1909 DMSO Fisher CAT#D136 Phenol:chloroform:IAA Fisher CAT#BP17521-100 4% Paraformaldehyde Alfa Aesar CAT#J61899 2X iQ SYBR Green SuperMix Bio-Rad CAT#170882 Critical commercial assays Seahorse XF Cell Mito Stress Test Kit Agilent CAT#103015-100 Pierce HRV 3C Protease Solution Kit (2 units/mL) ThermoFisher CAT#88946 Deposited data NMR chemical shifts (free zinc finger) & backbone relaxation rates BioMagResBank 51117 NMR chemical shifts (bound zinc finger) BioMagResBank 51118 NMR chemical shifts (fusion) BioMagResBank 30956 NMR backbone relaxation rates (fusion) BioMagResBank 51119 ZNG1-METAP1-zf fusion structure Protein Data Bank 7SEK Murine kidney and TKPTS cell line proteomics ProteomeXchange 562287 Experimental models: Cell lines Mouse: TKPTS WT parent ATCC CRL-3361; RRID: CVCL_UJ13 Mouse: TKPTS Zng1 (-2/-2) This manuscript N/A Mouse: TKPTS Zng1 (-7/-2) This manuscript N/A Mouse: TKPTS Zng1 (-2/-2); cmv:Zng1 This manuscript N/A Experimental models: Organisms/strains Zebrafish: zng1 (-5) This manuscript N/A Zebrafish: metap1 (-17) This manuscript N/A Zebrafish: zng1(-11) This manuscript N/A Mouse: Zng1 (-180) This manuscript N/A Oligonucleotides See Table S5 for oligonucleotides N/A N/A Recombinant DNA Mouse: pcDNA3.1-C-(k)-DYK-Cbwd1 GenScript OMu12215 Mouse: pcDNA3.1-C-(k)-DYK-Metap1 GenScript OMu05035 Zebrafish: pCRII - zng1 This manuscript N/A pLM302 zebrafish zng1 This manuscript N/A pLM302 zebrafish metap1 This manuscript N/A pLM302 mouse Zng1 This manuscript N/A pLM302 mouse Metap1 This manuscript N/A pBG102 mouse Metap1 1-83 This manuscript N/A pSUMO mouse Metap1 This manuscript N/A pSUMO mouse Metap1 1-59 This manuscript N/A pSUMO mouse Metap1 1-79 This manuscript N/A pSUMO mouse Zng1 10-30 Metap1 1-59 fusion This manuscript N/A Tagless pHis mouse Zng1 (NdeI-BamHI) This manuscript N/A pT3TS-nls-zCas9-nls Addgene CAT#46757 Software and algorithms Dynamics 7.5 Wyatt Technologies DYNAMICS Software - Wyatt Technology Fiji Open Source (ImageJ) Fiji (imagej.net) ChromLab Software Bio-Rad ChromLab Software | Bio-Rad Laboratories (Continued on next page) ll e3 Cell 185, 2148–2163.e1–e14, June 9, 2022 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER NMRBox University of Connecticut Health Center https://nmrbox.org/ HMMER HMMER http://hmmer.org/ Topspin 4 Bruker https://www.bruker.com/en/products-and- solutions/mr/nmr-software/topspin.html hmsIST Harvard Medical School https://bionmr.cores.ucla.edu/?page_id=440 NMRPipe National Institute of Standards and Technology https://www.ibbr.umd.edu/nmrpipe/index.html CARA https://wuthrich-group.ethz.ch/ http://cara.nmr.ch/ NMRFAM-Sparky University of Wisconsin https://nmrfam.wisc.edu/nmrfam-sparky- distribution/ CYANA LA Systems http://www.cyana.org NUS Poisson Gap Sampling Schedule generator for Topspin Hyberts et al. (2010) https://github.com/nomadiq/nusPGS_TS3_ TS4_Distro IMOD University of Colorado https://bio3d.colorado.edu/imod/ SerialEM University of Colorado https://bio3d.colorado.edu/SerialEM/ Wave Desktop Software Agilent Technologies https://www.agilent.com/en/product/cell- analysis/real-time-cell-metabolic-analysis/ xf-software/seahorse-wave-desktopsoftware-740897 CLC Genomics Workbench Qiagen https://digitalinsights.qiagen.com/products- overview/discovery-insights-portfolio/ analysis-and-visualization/qiagen-clcgenomics-workbench/ Ingenuity Pathway Analysis (IPA) Qiagen https://digitalinsights.qiagen.com/products- overview/discovery-insights-portfolio/ analysis-and-visualization/qiagen-ipa/ Agilent Mass Hunter Workstation Software version A.01.02 Agilent https://www.agilent.com/en/product/ atomic-spectroscopy/inductively-coupledplasma-mass-spectrometry-icp-ms/icpms-software/icp-ms-masshunter-software BioRender BioRender BioRender.com Other HisTrap High Performance Cytiva: Research & Biopharmaceutical Manufacturing N/A HisPur Cobalt Resin Cytiva: Research & Biopharmaceutical Manufacturing HisPur Cobalt Resin (thermofisher.com) Superdex 200 Increase 10/300 GL Cytiva: Research & Biopharmaceutical Manufacturing Superdex 200 Increase 10/300 GL | Cytiva (cytivalifesciences.com) NGC Quest 10 Bio-Rad NGC Quest 10 Chromatography System | Bio-Rad Laboratories DynaPro NanoStar Wyatt Technologies DynaPro NanoStar Dynamic Light Scattering Detector for Nanoparticles (wyatt.com) Supelco Ascentis Express C18 Column (50 mm x 2.1 mm, 5 micro particles) Sigma 50509-U SecurityGuard C18 Cartridge (3.2 mm x 8 mm) Phenomenex AJ0-4287 ll
Nuclear Magnetic Resonance:Article Title: Zn-regulated GTPase metalloprotein activator 1 modulates vertebrate zinc homeostasis.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER OPTIMA Nitric Acid Fisher CAT#A467-500 Ultratrace Hydrogen Peroxide Sigma CAT#95321 UltraPure Water Invitrogen CAT#10977-023 ARISTAR ICP Standard Mix VWR CAT#BDH82026-108 Sodium Cacodylate Trihydrate Electron Microscopy Sciences CAT#12310 Glutaraldehyde Electron Microscopy Sciences CAT#16310 Tannic Acid Electron Microscopy Sciences CAT#21700 Osmium Tetroxide Electron Microscopy Sciences CAT#19110 Uranyl Acetate Electron Microscopy Sciences CAT#22400 Propylene Oxide Electron Microscopy Sciences CAT#20411 Quetol 651 Electron Microscopy Sciences CAT#20440 ERL4221 Electron Microscopy Sciences CAT#15004 Nonenyl Succinic Anhydride Electron Microscopy Sciences CAT#19050 DER 736 Electron Microscopy Sciences CAT#13000 Benzyldimethylamine Electron Microscopy Sciences CAT#11400 Lead Nitrate Electron Microscopy Sciences CAT#17900 Sodium Citrate Electron Microscopy Sciences CAT#21140 Ethanol Decon Labs CAT#2716 GTP Sigma CAT#10106399001 NADH Sigma CAT#N8129 phosphoenolpyruvate Sigma CAT#86007 Pyruvate kinase / lactate dehydrogenase Sigma CAT#P0294 TCEP Chem-Impex CAT#23004 Quin-2 Sigma CAT#08520 Mag-fura-2 Invitrogen CAT#M1290 EDTA Alfa Aesar CAT#A173850B Chelex Bio-Rad CAT#141253 ZnCl2 Sigma CAT#208086-100G Magnesium chloride Fisher CAT#AA1079714 Ninhydrin Sigma CAT#151173-10G Malachite green oxalate Fisher CAT#229780250 Ammonium molybdate Sigma CAT#277908-5G Phosphate Fluka CAT#HONCE3039-100ML Geneticin sulfate G418 Fisher CAT#10131035 Lipofectamine 3000 Invitrogen CAT#L3000-008 Insulin Sigma CAT#SLCF5002 Fetal Bovine Serum (FBS) R and D Systems CAT#S11150 Hepes Fisher CAT#BP310-500 Lysozyme ThermoFisher CAT#89833 HisPur Cobalt Resin ThermoFisher CAT#89964 Maltose Sigma CAT#63423-100mL HRV 3C Protease Pierce CAT#88947 Nitrilotriacetic acid (NTA) Sigma CAT#9877 RIPA ThermoFisher CAT#89900 Halt Protease Inhibitor ThermoFisher CAT#78442 Tris/Glycine/SDS Buffer Bio-Rad CAT#1610732 Ponceau S Solution Sigma CAT#P7170 Odyssey Blocking Buffer Li-Cor CAT#927-40000 Glacial Acetic acid Millipore CAT#AX0074-2 (Continued on next page) ll Cell 185, 2148–2163.e1–e14, June 9, 2022 e2 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER Citric Acid Sigma CAT#Z1909 DMSO Fisher CAT#D136 Phenol:chloroform:IAA Fisher CAT#BP17521-100 4% Paraformaldehyde Alfa Aesar CAT#J61899 2X iQ SYBR Green SuperMix Bio-Rad CAT#170882 Critical commercial assays Seahorse XF Cell Mito Stress Test Kit Agilent CAT#103015-100 Pierce HRV 3C Protease Solution Kit (2 units/mL) ThermoFisher CAT#88946 Deposited data NMR chemical shifts (free zinc finger) & backbone relaxation rates BioMagResBank 51117 NMR chemical shifts (bound zinc finger) BioMagResBank 51118 NMR chemical shifts (fusion) BioMagResBank 30956 NMR backbone relaxation rates (fusion) BioMagResBank 51119 ZNG1-METAP1-zf fusion structure Protein Data Bank 7SEK Murine kidney and TKPTS cell line proteomics ProteomeXchange 562287 Experimental models: Cell lines Mouse: TKPTS WT parent ATCC CRL-3361; RRID: CVCL_UJ13 Mouse: TKPTS Zng1 (-2/-2) This manuscript N/A Mouse: TKPTS Zng1 (-7/-2) This manuscript N/A Mouse: TKPTS Zng1 (-2/-2); cmv:Zng1 This manuscript N/A Experimental models: Organisms/strains Zebrafish: zng1 (-5) This manuscript N/A Zebrafish: metap1 (-17) This manuscript N/A Zebrafish: zng1(-11) This manuscript N/A Mouse: Zng1 (-180) This manuscript N/A Oligonucleotides See Table S5 for oligonucleotides N/A N/A Recombinant DNA Mouse: pcDNA3.1-C-(k)-DYK-Cbwd1 GenScript OMu12215 Mouse: pcDNA3.1-C-(k)-DYK-Metap1 GenScript OMu05035 Zebrafish: pCRII - zng1 This manuscript N/A pLM302 zebrafish zng1 This manuscript N/A pLM302 zebrafish metap1 This manuscript N/A pLM302 mouse Zng1 This manuscript N/A pLM302 mouse Metap1 This manuscript N/A pBG102 mouse Metap1 1-83 This manuscript N/A pSUMO mouse Metap1 This manuscript N/A pSUMO mouse Metap1 1-59 This manuscript N/A pSUMO mouse Metap1 1-79 This manuscript N/A pSUMO mouse Zng1 10-30 Metap1 1-59 fusion This manuscript N/A Tagless pHis mouse Zng1 (NdeI-BamHI) This manuscript N/A pT3TS-nls-zCas9-nls Addgene CAT#46757 Software and algorithms Dynamics 7.5 Wyatt Technologies DYNAMICS Software - Wyatt Technology Fiji Open Source (ImageJ) Fiji (imagej.net) ChromLab Software Bio-Rad ChromLab Software | Bio-Rad Laboratories (Continued on next page) ll e3 Cell 185, 2148–2163.e1–e14, June 9, 2022 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER NMRBox University of Connecticut Health Center https://nmrbox.org/ HMMER HMMER http://hmmer.org/ Topspin 4 Bruker https://www.bruker.com/en/products-and- solutions/mr/nmr-software/topspin.html hmsIST Harvard Medical School https://bionmr.cores.ucla.edu/?page_id=440 NMRPipe National Institute of Standards and Technology https://www.ibbr.umd.edu/nmrpipe/index.html CARA https://wuthrich-group.ethz.ch/ http://cara.nmr.ch/ NMRFAM-Sparky University of Wisconsin https://nmrfam.wisc.edu/nmrfam-sparky- distribution/ CYANA LA Systems http://www.cyana.org NUS Poisson Gap Sampling Schedule generator for Topspin Hyberts et al. (2010) https://github.com/nomadiq/nusPGS_TS3_ TS4_Distro IMOD University of Colorado https://bio3d.colorado.edu/imod/ SerialEM University of Colorado https://bio3d.colorado.edu/SerialEM/ Wave Desktop Software Agilent Technologies https://www.agilent.com/en/product/cell- analysis/real-time-cell-metabolic-analysis/ xf-software/seahorse-wave-desktopsoftware-740897 CLC Genomics Workbench Qiagen https://digitalinsights.qiagen.com/products- overview/discovery-insights-portfolio/ analysis-and-visualization/qiagen-clcgenomics-workbench/ Ingenuity Pathway Analysis (IPA) Qiagen https://digitalinsights.qiagen.com/products- overview/discovery-insights-portfolio/ analysis-and-visualization/qiagen-ipa/ Agilent Mass Hunter Workstation Software version A.01.02 Agilent https://www.agilent.com/en/product/ atomic-spectroscopy/inductively-coupledplasma-mass-spectrometry-icp-ms/icpms-software/icp-ms-masshunter-software BioRender BioRender BioRender.com Other HisTrap High Performance Cytiva: Research & Biopharmaceutical Manufacturing N/A HisPur Cobalt Resin Cytiva: Research & Biopharmaceutical Manufacturing HisPur Cobalt Resin (thermofisher.com) Superdex 200 Increase 10/300 GL Cytiva: Research & Biopharmaceutical Manufacturing Superdex 200 Increase 10/300 GL | Cytiva (cytivalifesciences.com) NGC Quest 10 Bio-Rad NGC Quest 10 Chromatography System | Bio-Rad Laboratories DynaPro NanoStar Wyatt Technologies DynaPro NanoStar Dynamic Light Scattering Detector for Nanoparticles (wyatt.com) Supelco Ascentis Express C18 Column (50 mm x 2.1 mm, 5 micro particles) Sigma 50509-U SecurityGuard C18 Cartridge (3.2 mm x 8 mm) Phenomenex AJ0-4287 ll
Recombinant:Article Title: Zn-regulated GTPase metalloprotein activator 1 modulates vertebrate zinc homeostasis.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER OPTIMA Nitric Acid Fisher CAT#A467-500 Ultratrace Hydrogen Peroxide Sigma CAT#95321 UltraPure Water Invitrogen CAT#10977-023 ARISTAR ICP Standard Mix VWR CAT#BDH82026-108 Sodium Cacodylate Trihydrate Electron Microscopy Sciences CAT#12310 Glutaraldehyde Electron Microscopy Sciences CAT#16310 Tannic Acid Electron Microscopy Sciences CAT#21700 Osmium Tetroxide Electron Microscopy Sciences CAT#19110 Uranyl Acetate Electron Microscopy Sciences CAT#22400 Propylene Oxide Electron Microscopy Sciences CAT#20411 Quetol 651 Electron Microscopy Sciences CAT#20440 ERL4221 Electron Microscopy Sciences CAT#15004 Nonenyl Succinic Anhydride Electron Microscopy Sciences CAT#19050 DER 736 Electron Microscopy Sciences CAT#13000 Benzyldimethylamine Electron Microscopy Sciences CAT#11400 Lead Nitrate Electron Microscopy Sciences CAT#17900 Sodium Citrate Electron Microscopy Sciences CAT#21140 Ethanol Decon Labs CAT#2716 GTP Sigma CAT#10106399001 NADH Sigma CAT#N8129 phosphoenolpyruvate Sigma CAT#86007 Pyruvate kinase / lactate dehydrogenase Sigma CAT#P0294 TCEP Chem-Impex CAT#23004 Quin-2 Sigma CAT#08520 Mag-fura-2 Invitrogen CAT#M1290 EDTA Alfa Aesar CAT#A173850B Chelex Bio-Rad CAT#141253 ZnCl2 Sigma CAT#208086-100G Magnesium chloride Fisher CAT#AA1079714 Ninhydrin Sigma CAT#151173-10G Malachite green oxalate Fisher CAT#229780250 Ammonium molybdate Sigma CAT#277908-5G Phosphate Fluka CAT#HONCE3039-100ML Geneticin sulfate G418 Fisher CAT#10131035 Lipofectamine 3000 Invitrogen CAT#L3000-008 Insulin Sigma CAT#SLCF5002 Fetal Bovine Serum (FBS) R and D Systems CAT#S11150 Hepes Fisher CAT#BP310-500 Lysozyme ThermoFisher CAT#89833 HisPur Cobalt Resin ThermoFisher CAT#89964 Maltose Sigma CAT#63423-100mL HRV 3C Protease Pierce CAT#88947 Nitrilotriacetic acid (NTA) Sigma CAT#9877 RIPA ThermoFisher CAT#89900 Halt Protease Inhibitor ThermoFisher CAT#78442 Tris/Glycine/SDS Buffer Bio-Rad CAT#1610732 Ponceau S Solution Sigma CAT#P7170 Odyssey Blocking Buffer Li-Cor CAT#927-40000 Glacial Acetic acid Millipore CAT#AX0074-2 (Continued on next page) ll Cell 185, 2148–2163.e1–e14, June 9, 2022 e2 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER Citric Acid Sigma CAT#Z1909 DMSO Fisher CAT#D136 Phenol:chloroform:IAA Fisher CAT#BP17521-100 4% Paraformaldehyde Alfa Aesar CAT#J61899 2X iQ SYBR Green SuperMix Bio-Rad CAT#170882 Critical commercial assays Seahorse XF Cell Mito Stress Test Kit Agilent CAT#103015-100 Pierce HRV 3C Protease Solution Kit (2 units/mL) ThermoFisher CAT#88946 Deposited data NMR chemical shifts (free zinc finger) & backbone relaxation rates BioMagResBank 51117 NMR chemical shifts (bound zinc finger) BioMagResBank 51118 NMR chemical shifts (fusion) BioMagResBank 30956 NMR backbone relaxation rates (fusion) BioMagResBank 51119 ZNG1-METAP1-zf fusion structure Protein Data Bank 7SEK Murine kidney and TKPTS cell line proteomics ProteomeXchange 562287 Experimental models: Cell lines Mouse: TKPTS WT parent ATCC CRL-3361; RRID: CVCL_UJ13 Mouse: TKPTS Zng1 (-2/-2) This manuscript N/A Mouse: TKPTS Zng1 (-7/-2) This manuscript N/A Mouse: TKPTS Zng1 (-2/-2); cmv:Zng1 This manuscript N/A Experimental models: Organisms/strains Zebrafish: zng1 (-5) This manuscript N/A Zebrafish: metap1 (-17) This manuscript N/A Zebrafish: zng1(-11) This manuscript N/A Mouse: Zng1 (-180) This manuscript N/A Oligonucleotides See Table S5 for oligonucleotides N/A N/A Recombinant DNA Mouse: pcDNA3.1-C-(k)-DYK-Cbwd1 GenScript OMu12215 Mouse: pcDNA3.1-C-(k)-DYK-Metap1 GenScript OMu05035 Zebrafish: pCRII - zng1 This manuscript N/A pLM302 zebrafish zng1 This manuscript N/A pLM302 zebrafish metap1 This manuscript N/A pLM302 mouse Zng1 This manuscript N/A pLM302 mouse Metap1 This manuscript N/A pBG102 mouse Metap1 1-83 This manuscript N/A pSUMO mouse Metap1 This manuscript N/A pSUMO mouse Metap1 1-59 This manuscript N/A pSUMO mouse Metap1 1-79 This manuscript N/A pSUMO mouse Zng1 10-30 Metap1 1-59 fusion This manuscript N/A Tagless pHis mouse Zng1 (NdeI-BamHI) This manuscript N/A pT3TS-nls-zCas9-nls Addgene CAT#46757 Software and algorithms Dynamics 7.5 Wyatt Technologies DYNAMICS Software - Wyatt Technology Fiji Open Source (ImageJ) Fiji (imagej.net) ChromLab Software Bio-Rad ChromLab Software | Bio-Rad Laboratories (Continued on next page) ll e3 Cell 185, 2148–2163.e1–e14, June 9, 2022 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER NMRBox University of Connecticut Health Center https://nmrbox.org/ HMMER HMMER http://hmmer.org/ Topspin 4 Bruker https://www.bruker.com/en/products-and- solutions/mr/nmr-software/topspin.html hmsIST Harvard Medical School https://bionmr.cores.ucla.edu/?page_id=440 NMRPipe National Institute of Standards and Technology https://www.ibbr.umd.edu/nmrpipe/index.html CARA https://wuthrich-group.ethz.ch/ http://cara.nmr.ch/ NMRFAM-Sparky University of Wisconsin https://nmrfam.wisc.edu/nmrfam-sparky- distribution/ CYANA LA Systems http://www.cyana.org NUS Poisson Gap Sampling Schedule generator for Topspin Hyberts et al. (2010) https://github.com/nomadiq/nusPGS_TS3_ TS4_Distro IMOD University of Colorado https://bio3d.colorado.edu/imod/ SerialEM University of Colorado https://bio3d.colorado.edu/SerialEM/ Wave Desktop Software Agilent Technologies https://www.agilent.com/en/product/cell- analysis/real-time-cell-metabolic-analysis/ xf-software/seahorse-wave-desktopsoftware-740897 CLC Genomics Workbench Qiagen https://digitalinsights.qiagen.com/products- overview/discovery-insights-portfolio/ analysis-and-visualization/qiagen-clcgenomics-workbench/ Ingenuity Pathway Analysis (IPA) Qiagen https://digitalinsights.qiagen.com/products- overview/discovery-insights-portfolio/ analysis-and-visualization/qiagen-ipa/ Agilent Mass Hunter Workstation Software version A.01.02 Agilent https://www.agilent.com/en/product/ atomic-spectroscopy/inductively-coupledplasma-mass-spectrometry-icp-ms/icpms-software/icp-ms-masshunter-software BioRender BioRender BioRender.com Other HisTrap High Performance Cytiva: Research & Biopharmaceutical Manufacturing N/A HisPur Cobalt Resin Cytiva: Research & Biopharmaceutical Manufacturing HisPur Cobalt Resin (thermofisher.com) Superdex 200 Increase 10/300 GL Cytiva: Research & Biopharmaceutical Manufacturing Superdex 200 Increase 10/300 GL | Cytiva (cytivalifesciences.com) NGC Quest 10 Bio-Rad NGC Quest 10 Chromatography System | Bio-Rad Laboratories DynaPro NanoStar Wyatt Technologies DynaPro NanoStar Dynamic Light Scattering Detector for Nanoparticles (wyatt.com) Supelco Ascentis Express C18 Column (50 mm x 2.1 mm, 5 micro particles) Sigma 50509-U SecurityGuard C18 Cartridge (3.2 mm x 8 mm) Phenomenex AJ0-4287 ll
Software:Article Title: Zn-regulated GTPase metalloprotein activator 1 modulates vertebrate zinc homeostasis.
Article Snippet: REAGENT or RESOURCE SOURCE IDENTIFIER OPTIMA Nitric Acid Fisher CAT#A467-500 Ultratrace Hydrogen Peroxide Sigma CAT#95321 UltraPure Water Invitrogen CAT#10977-023 ARISTAR ICP Standard Mix VWR CAT#BDH82026-108 Sodium Cacodylate Trihydrate Electron Microscopy Sciences CAT#12310 Glutaraldehyde Electron Microscopy Sciences CAT#16310 Tannic Acid Electron Microscopy Sciences CAT#21700 Osmium Tetroxide Electron Microscopy Sciences CAT#19110 Uranyl Acetate Electron Microscopy Sciences CAT#22400 Propylene Oxide Electron Microscopy Sciences CAT#20411 Quetol 651 Electron Microscopy Sciences CAT#20440 ERL4221 Electron Microscopy Sciences CAT#15004 Nonenyl Succinic Anhydride Electron Microscopy Sciences CAT#19050 DER 736 Electron Microscopy Sciences CAT#13000 Benzyldimethylamine Electron Microscopy Sciences CAT#11400 Lead Nitrate Electron Microscopy Sciences CAT#17900 Sodium Citrate Electron Microscopy Sciences CAT#21140 Ethanol Decon Labs CAT#2716 GTP Sigma CAT#10106399001 NADH Sigma CAT#N8129 phosphoenolpyruvate Sigma CAT#86007 Pyruvate kinase / lactate dehydrogenase Sigma CAT#P0294 TCEP Chem-Impex CAT#23004 Quin-2 Sigma CAT#08520 Mag-fura-2 Invitrogen CAT#M1290 EDTA Alfa Aesar CAT#A173850B Chelex Bio-Rad CAT#141253 ZnCl2 Sigma CAT#208086-100G Magnesium chloride Fisher CAT#AA1079714 Ninhydrin Sigma CAT#151173-10G Malachite green oxalate Fisher CAT#229780250 Ammonium molybdate Sigma CAT#277908-5G Phosphate Fluka CAT#HONCE3039-100ML Geneticin sulfate G418 Fisher CAT#10131035 Lipofectamine 3000 Invitrogen CAT#L3000-008 Insulin Sigma CAT#SLCF5002 Fetal Bovine Serum (FBS) R and D Systems CAT#S11150 Hepes Fisher CAT#BP310-500 Lysozyme ThermoFisher CAT#89833 HisPur Cobalt Resin ThermoFisher CAT#89964 Maltose Sigma CAT#63423-100mL HRV 3C Protease Pierce CAT#88947 Nitrilotriacetic acid (NTA) Sigma CAT#9877 RIPA ThermoFisher CAT#89900 Halt Protease Inhibitor ThermoFisher CAT#78442 Tris/Glycine/SDS Buffer Bio-Rad CAT#1610732 Ponceau S Solution Sigma CAT#P7170 Odyssey Blocking Buffer Li-Cor CAT#927-40000 Glacial Acetic acid Millipore CAT#AX0074-2 (Continued on next page) ll Cell 185, 2148–2163.e1–e14, June 9, 2022 e2 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER Citric Acid Sigma CAT#Z1909 DMSO Fisher CAT#D136 Phenol:chloroform:IAA Fisher CAT#BP17521-100 4% Paraformaldehyde Alfa Aesar CAT#J61899 2X iQ SYBR Green SuperMix Bio-Rad CAT#170882 Critical commercial assays Seahorse XF Cell Mito Stress Test Kit Agilent CAT#103015-100 Pierce HRV 3C Protease Solution Kit (2 units/mL) ThermoFisher CAT#88946 Deposited data NMR chemical shifts (free zinc finger) & backbone relaxation rates BioMagResBank 51117 NMR chemical shifts (bound zinc finger) BioMagResBank 51118 NMR chemical shifts (fusion) BioMagResBank 30956 NMR backbone relaxation rates (fusion) BioMagResBank 51119 ZNG1-METAP1-zf fusion structure Protein Data Bank 7SEK Murine kidney and TKPTS cell line proteomics ProteomeXchange 562287 Experimental models: Cell lines Mouse: TKPTS WT parent ATCC CRL-3361; RRID: CVCL_UJ13 Mouse: TKPTS Zng1 (-2/-2) This manuscript N/A Mouse: TKPTS Zng1 (-7/-2) This manuscript N/A Mouse: TKPTS Zng1 (-2/-2); cmv:Zng1 This manuscript N/A Experimental models: Organisms/strains Zebrafish: zng1 (-5) This manuscript N/A Zebrafish: metap1 (-17) This manuscript N/A Zebrafish: zng1(-11) This manuscript N/A Mouse: Zng1 (-180) This manuscript N/A Oligonucleotides See Table S5 for oligonucleotides N/A N/A Recombinant DNA Mouse: pcDNA3.1-C-(k)-DYK-Cbwd1 GenScript OMu12215 Mouse: pcDNA3.1-C-(k)-DYK-Metap1 GenScript OMu05035 Zebrafish: pCRII - zng1 This manuscript N/A pLM302 zebrafish zng1 This manuscript N/A pLM302 zebrafish metap1 This manuscript N/A pLM302 mouse Zng1 This manuscript N/A pLM302 mouse Metap1 This manuscript N/A pBG102 mouse Metap1 1-83 This manuscript N/A pSUMO mouse Metap1 This manuscript N/A pSUMO mouse Metap1 1-59 This manuscript N/A pSUMO mouse Metap1 1-79 This manuscript N/A pSUMO mouse Zng1 10-30 Metap1 1-59 fusion This manuscript N/A Tagless pHis mouse Zng1 (NdeI-BamHI) This manuscript N/A pT3TS-nls-zCas9-nls Addgene CAT#46757 Software and algorithms Dynamics 7.5 Wyatt Technologies DYNAMICS Software - Wyatt Technology Fiji Open Source (ImageJ) Fiji (imagej.net) ChromLab Software Bio-Rad ChromLab Software | Bio-Rad Laboratories (Continued on next page) ll e3 Cell 185, 2148–2163.e1–e14, June 9, 2022 Article .. REAGENT or RESOURCE SOURCE IDENTIFIER NMRBox University of Connecticut Health Center https://nmrbox.org/ HMMER HMMER http://hmmer.org/ Topspin 4 Bruker https://www.bruker.com/en/products-and- solutions/mr/nmr-software/topspin.html hmsIST Harvard Medical School https://bionmr.cores.ucla.edu/?page_id=440 NMRPipe National Institute of Standards and Technology https://www.ibbr.umd.edu/nmrpipe/index.html CARA https://wuthrich-group.ethz.ch/ http://cara.nmr.ch/ NMRFAM-Sparky University of Wisconsin https://nmrfam.wisc.edu/nmrfam-sparky- distribution/ CYANA LA Systems http://www.cyana.org NUS Poisson Gap Sampling Schedule generator for Topspin Hyberts et al. (2010) https://github.com/nomadiq/nusPGS_TS3_ TS4_Distro IMOD University of Colorado https://bio3d.colorado.edu/imod/ SerialEM University of Colorado https://bio3d.colorado.edu/SerialEM/ Wave Desktop Software Agilent Technologies https://www.agilent.com/en/product/cell- analysis/real-time-cell-metabolic-analysis/ xf-software/seahorse-wave-desktopsoftware-740897 CLC Genomics Workbench Qiagen https://digitalinsights.qiagen.com/products- overview/discovery-insights-portfolio/ analysis-and-visualization/qiagen-clcgenomics-workbench/ Ingenuity Pathway Analysis (IPA) Qiagen https://digitalinsights.qiagen.com/products- overview/discovery-insights-portfolio/ analysis-and-visualization/qiagen-ipa/ Agilent Mass Hunter Workstation Software version A.01.02 Agilent https://www.agilent.com/en/product/ atomic-spectroscopy/inductively-coupledplasma-mass-spectrometry-icp-ms/icpms-software/icp-ms-masshunter-software BioRender BioRender BioRender.com Other HisTrap High Performance Cytiva: Research & Biopharmaceutical Manufacturing N/A HisPur Cobalt Resin Cytiva: Research & Biopharmaceutical Manufacturing HisPur Cobalt Resin (thermofisher.com) Superdex 200 Increase 10/300 GL Cytiva: Research & Biopharmaceutical Manufacturing Superdex 200 Increase 10/300 GL | Cytiva (cytivalifesciences.com) NGC Quest 10 Bio-Rad NGC Quest 10 Chromatography System | Bio-Rad Laboratories DynaPro NanoStar Wyatt Technologies DynaPro NanoStar Dynamic Light Scattering Detector for Nanoparticles (wyatt.com) Supelco Ascentis Express C18 Column (50 mm x 2.1 mm, 5 micro particles) Sigma 50509-U SecurityGuard C18 Cartridge (3.2 mm x 8 mm) Phenomenex AJ0-4287 ll
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