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Plasma Membrane Protein Identifications from Human Bone Marrow Mesenchymal Stem Cells

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Supplementary Material (ESI) for Analytical Methods This journal is (C) The Royal Society of Chemistry 2010 Supplementary Table 1: Plasma Membrane Protein Identifications from Human Bone Marrow Mesenchymal Stem Cells Symbol Entrez Gene Name Type ABCA1 ATP-binding cassette, sub-family A (ABC1), member 1 transporter ABCC1 ATP-binding cassette, sub-family C (CFTR/MRP), member 1 transporter ABCC2 ATP-binding cassette, sub-family C (CFTR/MRP), member 2 transporter ABCC3 ATP-binding cassette, sub-family C (CFTR/MRP), member 3 transporter ABCG1 ATP-binding cassette, sub-family G (WHITE), member 1 transporter ABCG8 ATP-binding cassette, sub-family G (WHITE), member 8 transporter ACE angiotensin I converting enzyme (peptidyl-dipeptidase A) 1 peptidase ACTR2 ARP2 actin-related protein 2 homolog (yeast) other ACVR1 activin A receptor, type I kinase ACVRL1 activin A receptor type II-like 1 kinase ADAM9 ADAM metallopeptidase domain 9 (meltrin gamma) peptidase ADAM10 ADAM metallopeptidase domain 10 peptidase ADAM17 ADAM metallopeptidase domain 17 peptidase ADAM19 ADAM metallopeptidase domain 19 (meltrin beta) peptidase ADAM22 ADAM metallopeptidase domain 22 peptidase ADAM21 ADAM metallopeptidase domain 21 peptidase ADCY1 adenylate cyclase 1 (brain) enzyme ADCY3 adenylate cyclase 3 enzyme ADCY5 adenylate cyclase 5 enzyme aminoacyl tRNA synthetase complex-interacting multifunctional AIMP2 protein 2 other ALK anaplastic lymphoma receptor tyrosine kinase kinase ANXA1 annexin A1 other ANXA2 annexin A2 other ANXA4 annexin A4 other ANXA5 annexin A5 other ANXA6 annexin A6 other AOC3 amine oxidase, copper containing 3 (vascular adhesion protein 1) enzyme ARF6 ADP-ribosylation factor 6 transporter ATP10B ATPase, class V, type 10B transporter ATP11B ATPase, class VI, type 11B transporter ATP1A1 ATPase, Na+/K+ transporting, alpha 1 polypeptide transporter ATP1B1 ATPase, Na+/K+ transporting, beta 1 polypeptide transporter ATP1B3 ATPase, Na+/K+ transporting, beta 3 polypeptide transporter ATP2B1 ATPase, Ca++ transporting, plasma membrane 1 transporter ATP2B2 ATPase, Ca++ transporting, plasma membrane 2 transporter ATP2B3 ATPase, Ca++ transporting, plasma membrane 3 transporter ATP2B4 ATPase, Ca++ transporting, plasma membrane 4 transporter ATP8B2 ATPase, class I, type 8B, member 2 transporter ATP9A ATPase, class II, type 9A transporter G-protein BAI3 brain-specific angiogenesis inhibitor 3 coupled receptor BASP1 brain abundant, membrane attached signal protein 1 other BCAR1 breast cancer anti-estrogen resistance 1 other BEST4 bestrophin 4 other Supplementary Material (ESI) for Analytical Methods This journal is (C) The Royal Society of Chemistry 2010 BMPR1A bone morphogenetic protein receptor, type IA kinase BRP44 brain protein 44 other BVES blood vessel epicardial substance other C20ORF3 chromosome 20 open reading frame 3 other CA12 carbonic anhydrase XII enzyme CACNA1A calcium channel, voltage-dependent, P/Q type, alpha 1A subunit ion channel CACNA1B calcium channel, voltage-dependent, N type, alpha 1B subunit ion channel CACNA1F calcium channel, voltage-dependent, L type, alpha 1F subunit ion channel CACNA1H calcium channel, voltage-dependent, T type, alpha 1H subunit ion channel CACNA1I calcium channel, voltage-dependent, T type, alpha 1I subunit ion channel calcium/calmodulin-dependent serine protein kinase (MAGUK CASK family) kinase G-protein CASR calcium-sensing receptor coupled receptor CAV1 caveolin 1, caveolae protein, 22kDa other CAV2 caveolin 2 other G-protein CCKBR cholecystokinin B receptor coupled receptor CD22 CD22 molecule other CD44 CD44 molecule (Indian blood group) other CD63 CD63 molecule other CD74 molecule, major histocompatibility complex, class II transmembrane CD74 invariant chain receptor CD81 CD81 molecule other CDH1 cadherin 1, type 1, E-cadherin (epithelial) other CDH2 cadherin 2, type 1, N-cadherin (neuronal) other CDH6 cadherin 6, type 2, K-cadherin (fetal kidney) other CDH23 cadherin-like 23 transporter CDH4 cadherin 4, type 1, R-cadherin (retinal) other cadherin, EGF LAG seven-pass G-type receptor 1 (flamingo G-protein CELSR1 homolog, Drosophila) coupled receptor cadherin, EGF LAG seven-pass G-type receptor 3 (flamingo G-protein CELSR3 homolog, Drosophila) coupled receptor CGN cingulin other transmembrane CHRNA9 cholinergic receptor, nicotinic, alpha 9 receptor transmembrane CHRND cholinergic receptor, nicotinic, delta receptor CLCN1 chloride channel 1, skeletal muscle ion channel CLCN6 chloride channel 6 ion channel CLCN7 chloride channel 7 ion channel CLEC4F C-type lectin domain family 4, member F other CLSTN1 calsyntenin 1 other CLTC clathrin, heavy chain (Hc) other CLTCL1 clathrin, heavy chain-like 1 other CNGA1 cyclic nucleotide gated channel alpha 1 ion channel CNGA3 cyclic nucleotide gated channel alpha 3 ion channel CNGB1 cyclic nucleotide gated channel beta 1 ion channel CNTNAP1 contactin associated protein 1 other CORIN corin, serine peptidase peptidase CPM carboxypeptidase M peptidase CR2 complement component (3d/Epstein Barr virus) receptor 2 transmembrane Supplementary Material (ESI) for Analytical Methods This journal is (C) The Royal Society of Chemistry 2010 receptor CRIP2 cysteine-rich protein 2 other colony stimulating factor 2 receptor, beta, low-affinity transmembrane CSF2RB (granulocyte-macrophage) receptor CTNNA1 catenin (cadherin-associated protein), alpha 1, 102kDa other catenin (cadherin-associated protein), delta 2 (neural plakophilin- CTNND2 related arm-repeat protein) other DCHS1 dachsous 1 (Drosophila) other DMD dystrophin other DNM2 dynamin 2 enzyme DSC3 desmocollin 3 other DSCAM Down syndrome cell adhesion molecule other DSG2 desmoglein 2 other DSG3 desmoglein 3 (pemphigus vulgaris antigen) other DST dystonin other DTNB dystrobrevin, beta other dysferlin, limb girdle muscular dystrophy 2B (autosomal DYSF recessive) other EFNB2 ephrin-B2 other EFR3A EFR3 homolog A (S. cerevisiae) other epidermal growth factor receptor (erythroblastic leukemia viral (v- EGFR erb-b) oncogene homolog, avian) kinase EHD4 EH-domain containing 4 enzyme ENG endoglin other ENPP1 ectonucleotide pyrophosphatase/phosphodiesterase 1 enzyme EPB41L1 erythrocyte membrane protein band 4.1-like 1 other EPB41L2 erythrocyte membrane protein band 4.1-like 2 other EPB41L3 erythrocyte membrane protein band 4.1-like 3 other EPHA4 EPH receptor A4 kinase EPHA8 EPH receptor A8 kinase EPHB2 EPH receptor B2 kinase EPHB3 EPH receptor B3 kinase EPHB4 EPH receptor B4 kinase EPS8 epidermal growth factor receptor pathway substrate 8 peptidase ERLIN2 ER lipid raft associated 2 other EVPL envoplakin other EXOC3 exocyst complex component 3 transporter EXOC7 exocyst complex component 7 transporter G-protein F2R coagulation factor II (thrombin) receptor coupled receptor FAAH fatty acid amide hydrolase enzyme transmembrane FAS Fas (TNF receptor superfamily, member 6) receptor FAT1 FAT tumor suppressor homolog 1 (Drosophila) other FAT2 FAT tumor suppressor homolog 2 (Drosophila) other FGFR1 fibroblast growth factor receptor 1 kinase FGFR2 fibroblast growth factor receptor 2 kinase FGFR3 fibroblast growth factor receptor 3 kinase FLOT1 flotillin 1 other FLOT2 flotillin 2 other FN1 fibronectin 1 Enzyme FYN FYN oncogene related to SRC, FGR, YES kinase Supplementary Material (ESI) for Analytical Methods This journal is (C) The Royal Society of Chemistry 2010 G-protein FZD7 frizzled homolog 7 (Drosophila) coupled receptor GABRA2 gamma-aminobutyric acid (GABA) A receptor, alpha 2 ion channel GAS1 growth arrest-specific 1 other GJA1 gap junction protein, alpha 1, 43kDa transporter G-protein GLP1R glucagon-like peptide 1 receptor coupled receptor GNA13 guanine nucleotide binding protein (G protein), alpha 13 enzyme guanine nucleotide binding protein (G protein), alpha inhibiting GNAI2 activity polypeptide 2 enzyme GNAS GNAS complex locus enzyme GNG4 guanine nucleotide binding protein (G protein), gamma 4 enzyme GNG12 guanine nucleotide binding protein (G protein), gamma 12 enzyme GP5 glycoprotein V (platelet) other transmembrane GPC1 glypican 1 receptor GRIA2 glutamate receptor, ionotropic, AMPA 2 ion channel GRID1 glutamate receptor, ionotropic, delta 1 ion channel GRIK1 glutamate receptor, ionotropic, kainate 1 ion channel GRIK3 glutamate receptor, ionotropic, kainate 3 ion channel GRIN2D glutamate receptor, ionotropic, N-methyl D-aspartate 2D ion channel G-protein GRM2 glutamate receptor, metabotropic 2 coupled receptor G-protein GRM3 glutamate receptor, metabotropic 3 coupled receptor G-protein GRM6 glutamate receptor, metabotropic 6 coupled receptor G-protein GRM7 glutamate receptor, metabotropic 7 coupled receptor GUCY2D guanylate cyclase 2D, membrane (retina-specific) kinase GYPC glycophorin C (Gerbich blood group) other HAS1 hyaluronan synthase 1 enzyme hyperpolarization activated cyclic nucleotide-gated potassium HCN3 channel 3 ion channel transmembrane HLA-A major histocompatibility complex, class I, A receptor transmembrane HLA-B major histocompatibility complex, class I, B receptor transmembrane HLA-C major histocompatibility complex, class I, C receptor transmembrane HLA-DQB2 major histocompatibility complex, class II, DQ beta 2 receptor HOMER3 homer homolog 3 (Drosophila) other HSPG2 heparan sulfate proteoglycan 2 other G-protein HTR1D 5-hydroxytryptamine (serotonin) receptor 1D coupled receptor ICAM5 intercellular adhesion molecule 5, telencephalin other ICOSLG inducible T-cell co-stimulator ligand other transmembrane IGF1R insulin-like growth factor 1 receptor receptor transmembrane IGF2R insulin-like growth factor 2 receptor receptor
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  • A SARS-Cov-2-Human Protein-Protein Interaction Map Reveals Drug Targets and Potential Drug-Repurposing

    A SARS-Cov-2-Human Protein-Protein Interaction Map Reveals Drug Targets and Potential Drug-Repurposing

    A SARS-CoV-2-Human Protein-Protein Interaction Map Reveals Drug Targets and Potential Drug-Repurposing Supplementary Information Supplementary Discussion All SARS-CoV-2 protein and gene functions described in the subnetwork appendices, including the text below and the text found in the individual bait subnetworks, are based on the functions of homologous genes from other coronavirus species. These are mainly from SARS-CoV and MERS-CoV, but when available and applicable other related viruses were used to provide insight into function. The SARS-CoV-2 proteins and genes listed here were designed and researched based on the gene alignments provided by Chan et. al. 1 2020 .​ Though we are reasonably sure the genes here are well annotated, we want to note that not every ​ protein has been verified to be expressed or functional during SARS-CoV-2 infections, either in vitro or in vivo. ​ ​ In an effort to be as comprehensive and transparent as possible, we are reporting the sub-networks of these functionally unverified proteins along with the other SARS-CoV-2 proteins. In such cases, we have made notes within the text below, and on the corresponding subnetwork figures, and would advise that more caution be taken when examining these proteins and their molecular interactions. Due to practical limits in our sample preparation and data collection process, we were unable to generate data for proteins corresponding to Nsp3, Orf7b, and Nsp16. Therefore these three genes have been left out of the following literature review of the SARS-CoV-2 proteins and the protein-protein interactions (PPIs) identified in this study.