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OttoMass SpectrometryShotgun proteomicsNot availableActinoplanes sp. se50/110http://www.ebi.ac.uk/pride/archive/projects/PXD001497Cultivation of Actinoplanes sp. SE50/110 in Maltose Minimal Medium Actinoplanes sp. SE50/110 (ATCC 31044; CBS 674.73) was cultivated following a modified protocol used by Wendler et al.[1,2]. This protocol included three stages with two shake flask pre cultures and a bioreactor main culture. Both pre-cultures were grown in baffled polycarbonate Erlenmeyer flasks (Corning, Tewksbury, MA, USA) with Silicosen C 40 plugs (Hirschmann Laborgeräte, Eberstadt, Germany) at 140 rpm and 28 °C in a GFL shaking incubator 3032 (GFL, Burgwedel, Germany). For the first pre culture glucose complex medium33 was inoculated with 1.75 ml glycerol cryo cultures in 250 ml flasks with 50 ml medium, grown for 48 h, harvested by centrifugation (1900 rcf, 2 min, 4 °C) and washed twice with 150 mM NaCl solution. Subsequently, cells were resuspended in 22.5 ml NaCl solution of which 1.5 ml was used for inoculation of the second pre culture (250 ml flasks, 50 ml medium). In the second pre culture cells were adapted to the minimal main culture medium. The medium was composed of solutions S1 S6 described in Table 1. After 48 h of cultivation cells were harvested by centrifugation (1900 rcf, 2 min, 4 °C), washed twice with 150 mM NaCl solution and resuspended in 26 ml NaCl solution (150 mM). Of the resuspended cells 25 ml were used for the inoculation of the main culture that was carried out in 1 l Biostat Qplus bioreactors (Sartorius AG, Göttingen, Germany) filled with 775 ml minimal medium (Table 1). For the bioreactor minimal medium the different solutions were combined after being prepared and sterilized separately: S1 and S3 were prepared and sterile filtered separately; S2 was autoclaved in the bioreactor; S4, CaCO3 solution and antifoam were autoclaved separately. The setpoints for the cultivation parameters were pH 6.5 and 30 °C. The pH was automatically controlled through the addition of 2 M NaOH and 10 % (w/v) H3PO4. The regulation of the dissolved oxygen level at 50 % was ensured through a cascade. If needed the gas flow with air was increased (minimum 0.075 to 0.75 NL min-1) followed by an increase of the stirrer speed (minimum 600 to 1200 rpm). Preparation of Proteomic Samples For all analyzed fractions proteomic samples were taken after 46 h of cultivation. For this, 90 ml of the culture were harvested by centrifugation (1900 rcf, 2 min, 4 °C) and washed twice with 150 mM NaCl. During sample treatment equal protein amounts of 14N unlabelled samples and 15N labelled pools were mixed to allow relative quantification of proteins. The present study only relies on information obtained from the 14N-unlabelled mass trace of the proteome samples. Preparation of the different subcellular proteome fractions was carried out as described by Otto et al. [3]. For the cytosolic and extracellular fraction an additional preceding step was the phenol extraction of proteins from a part of harvested cells or supernatant as described by Wendler et al. [2]. In the workflow proteins of the cytosolic, the enriched membrane and the extracellular fraction were fractionated using 1D SDS gels and were in gel digested with trypsin. In the membrane shaving protocol, membranes were spun down by ultracentrifugation, soluble loops were digested by Proteinase K in urea (shaving), and remaining transmembrane domains were digested with chymotrypsin in a buffer containing the MS compatible detergent RapiGest (Waters Corporation, Milford, MA, USA). LC MS/MS measurement Sample preparation and LC-MS/MS measurements were carried out according to Otto et al. [3]. Therefore peptides of all four fractions were subjected to reversed phase C18 column chromatography operated on a Proxeon EASYnLC (Thermo Fisher Scientific, Waltham, MA, USA). MS and MS/MS data were acquired with a LTQ-Orbitrap mass spectrometer (Thermo Fisher Scientific, Waltham, MA, USA) online coupled to the LC system.PrideNot availableNo PTMs are included in the datasetRelative Quantification of Proteins by Spectral Counting Normalized spectral abundance factors (NSAF) were derived to estimate the relative abundance of each protein within different fractions according to Zybailov [4]. NSAF values (SpC/(L•?SpC)) are the number of MS/MS spectra (SpC) assigned to a protein divided by protein length (L) and the total number of spectra assigned to proteins (?SpC) within one sample. NSAFs are indicated as mean values of three replicates. Bioinformatics Tools used for Analysis of Proteins The LocateP v.2.0 pipeline47 was used to predict subcellular locations of proteins. Subcellular locations were assigned as follows: (1) intracellular {intracellular}; (2) integral membrane {multitransmembrane, multitransmembrane (lipid-modified N termini)}; (3) membrane-associated {lipid anchored, N terminally anchored (no cleavage site), N terminally anchored (with cleavage site), C terminally anchored (with cleavage site), intracellular / TMH start after 60}; (4) secreted {secretory (released) (with cleavage site)}. In the manual analysis of signal peptides cleavage sites were determined with SignalP66. The hydrophobic H domains were determined with the ExPASy ProtScale Tool according to Kyte & Doolittle67. Twin arginine motifs (RRxFLk) were predicted with TatP68. Transmembrane helices were determined by the TMHMM69 algorithm.ProteomicsAndreas OttoLTQ OrbitrapAndreas Otto, Institute for Microbiology, Ernst-Moritz-Arndt-University of Greifswald, F.-L. Jahnstrasse 15, 17489 Greifswald, GermanyPARTIALActinoplanes Sp. (strain Atcc 31044 / Cbs 674.73 / Se50/110)andreas.otto@uni-greifswald.de26597626 Wendler S, Otto A, Ortseifen V, Bonn F, Neshat A, Schneiker-Bekel S, Wolf T, Zemke T, Wehmeier UF, Hecker M, Kalinowski J, Becher D, Pühler A. Comparative proteome analysis of the Actinoplanes sp. SE50/110 grown with maltose or glucose shows minor differences for acarbose biosynthesis proteins but major differences for saccharide transporters. J Proteomics. 2015 Oct 25. pii: S1874-3919(15)30166-4 10.1016/j.jprot.2015.10.02325896738 Wendler S, Otto A, Ortseifen V, Bonn F, Neshat A, Schneiker-Bekel S, Walter F, Wolf T, Zemke T, Wehmeier UF, Hecker M, Kalinowski J, Becher D, Pühler A; Comprehensive proteome analysis of Actinoplanes sp. SE50/110 highlighting the location of proteins encoded by the acarbose and the pyochelin biosynthesis gene cluster., J Proteomics, 2015 Jul 1, 125, 1-16, 10.1016/j.jprot.2015.04.013BiomedicalInstitute for MicrobiologyAcarbose is an α-glucosidase inhibitor produced by Actinoplanes sp. SE50/110 that is medically important due to its application in the treatment of type2 diabetes. In this work, a comprehensive proteome analysis of Actinoplanes sp. SE50/110 was carried out to determine the location of proteins of the acarbose (acb) and the putative pyochelin (pch) biosynthesis gene cluster. Therefore, a comprehensive state-of-the-art proteomics approach combining subcellular fractionation, shotgun proteomics and spectral counting to assess the relative abundance of proteins within fractions was applied. The analysis of four different proteome fractions (cytosolic, enriched membrane, membrane shaving and extracellular fraction) resulted in the identification of 1582 of the 8270 predicted proteins. All 22 Acb-proteins and 21 of the 23 Pch-proteins were detected. Predicted membrane-associated, integral membrane or extracellular proteins of the pch and the acb gene cluster were found among the most abundant proteins in corresponding fractions. Intracellular biosynthetic proteins of both gene clusters were not only detected in the cytosolic, but also in the enriched membrane fraction, indicating that the biosynthesis of acarbose and putative pyochelin metabolites takes place at the inner membrane.<h4>Biological significance</h4>Actinoplanes sp. SE50/110 is a natural producer of the α-glucosidase inhibitor acarbose, a bacterial secondary metabolite that is used as a drug for the treatment of type 2 diabetes, a disease which is a global pandemic that currently affects 387 million people and accounts for 11% of worldwide healthcare expenditures (www.idf.org). The work presented here is the first comprehensive investigation of protein localization and abundance in Actinoplanes sp. SE50/110 and provides an extensive source of information for the selection of genes for future mutational analysis and other hypothesis driven experiments. The conclusion that acarbose or pyochelin family siderophores are synthesized at the inner side of the cytoplasmic membrane determined from this work, indicates that studying corresponding intermediates will be challenging. In addition to previous studies on the genome and transcriptome, the work presented here demonstrates that the next omic level, the proteome, is now accessible for detailed physiological analysis of Actinoplanes sp. SE50/110, as well as mutants derived from this and related species.Actinoplanes sp. SE50/110 is known for the production of the α-glucosidase inhibitor and anti-diabetic drug acarbose. Acarbose (acarviosyl-maltose) is produced as the major product when the bacterium is grown in medium with maltose, while acarviosyl-glucose is the major product when glucose is the sole carbon source in the medium. In this study, a state-of-the-art proteomics approach was applied combining subcellular fractionation, in vivo metabolic labeling and shotgun mass spectrometry to analyze differences in the proteome of Actinoplanes sp. SE50/110 cultures grown in minimal medium containing either maltose or glucose as the sole carbon source. To study proteins in distinct subcellular locations, a cytosolic, an enriched membrane, a membrane shaving and an extracellular fraction were included in the analysis. Altogether, quantitative proteome data was obtained for 2497 proteins representing about 30% of the ca. 8270 predicted proteins of Actinoplanes sp. SE50/110. When comparing protein quantities of maltose- to glucose-grown cultures, differences were observed for saccharide transport and metabolism proteins, whereas differences for acarbose biosynthesis gene cluster proteins were almost absent. The maltose-inducible α-glucosidase/maltase MalL as well as the ABC-type saccharide transporters AglEFG, MalEFG and MstEAF had significantly higher quantities in the maltose growth condition. The only highly abundant saccharide transporter in the glucose condition was the monosaccharide transporter MstEAF, which may indicate that MstEAF is the major glucose importer. Taken all findings together, the previously observed formation of acarviosyl-maltose and acarviosyl-glucose is more closely connected to the transport of saccharides than to a differential expression of the acarbose gene cluster.<h4>Biological significance</h4>Diabetes is a global pandemic accounting for about 11% of the worldwide healthcare expenditures (>600 billion US dollars) and is projected to affect 592 million people by 2035 (www.idf.org). Whether Actinoplanes sp. SE50/110 produces type 2 diabetes drug acarbose (acarviosyl-maltose) or another acarviose metabolite such as acarviosyl-glucose as the major product depends on the offered carbon source. The differences observed in this proteome in this study suggest that the differences in the formation of acarviosyl-maltose and acarviosyl-glucose are more closely connected to the transport of saccharides than to a differential expression of the acarbose gene cluster. In addition, the present study provides a comprehensive overview of the proteome of Actinoplanes sp. SE50/110.Comprehensive proteome analysis of Actinoplanes sp. SE50/110 highlighting the location of proteins encoded by the acarbose and the pyochelin biosynthesis gene cluster.Comparative proteome analysis of Actinoplanes sp. SE50/110 grown with maltose or glucose shows minor differences for acarbose biosynthesis proteins but major differences for saccharide transporters.Wendler Sergej S, Otto Andreas A, Ortseifen Vera V, Bonn Florian F, Neshat Armin A, Schneiker-Bekel Susanne S, Wolf Timo T, Zemke Till T, Wehmeier Udo F UF, Hecker Michael M, Kalinowski Jörn J, Becher Dörte D, Pühler Alfred AWendler Sergej S, Otto Andreas A, Ortseifen Vera V, Bonn Florian F, Neshat Armin A, Schneiker-Bekel Susanne S, Walter Frederik F, Wolf Timo T, Zemke Till T, Wehmeier Udo F UF, Hecker Michael M, Kalinowski Jörn J, Becher Dörte D, Pühler Alfred AFermentors, CPD photolyase activity, AU019543, PhrB photolyase activity, dem, Glukose, SDH, Basodexan, Fermentor, SDS, Polypeptides, protein polypeptide chains, GRP1, Cultural, Dextrose, oxigeno, Grp1, B1, Actinoplanes sp. 50/110, CG4840, 1, Urea, 2, Phenol, 3, AI303044, NUP96, germacrene A synthase activity, outer pigmented layer of retina, Work Flow, epithelium, WMS, 3-Propanetriol, ethnicity, Oelsuess, acide carbolique, D-(+)-maltose, O, PTPSTEP, Oxygen-16, Tissue, proteasome endopeptidase activity, composition, proteins, present in organism, SUPPRESSOR OF AUXIN RESISTANCE 3, AI047805, PA1, glucose, Oxygen, salt, pigment epithelium of retina, [OO], column, infertility, sample, D1, pigmented retina epithelium, s, SGS, GPH, Phenylic alcohol, Phenic acid, LC-MS2, Glyceritol, elastase activity, Sodium hydroxide, integral to membrane, GAST, not genetically inherited, ACMICD, acide phenique, Avazyme, D-maltose, Cultural Background, common salt, Workflows, Cultures, Dm1, soluble, dipyrimidine photolyase (photosensitive), (alpha-D)-Isomer, 6-trans-farnesyl-diphosphate diphosphate-lyase (germacrene-A-forming) activity, D-Glucose, dioxygen, Gro, Sez7, glycerine, CG11628, content, Striatum-enriched protein-tyrosine phosphatase, sodium hydrate, study protocol, beta Trypsin, dCBS, maltobiose, Sodium Salt, Bip, liquid chromatography-tandem mass spectroscopy, Glucose Monohydrate, Work Flows, Dioxygen, F10B6_15, GLYCEROL, GRP1/cytohesin 1, Glucose, mBiP, E-948, 2-trans, Carbamide, protein-containing complex, Alphacutanée, deoxyribodipyrimidine photolyase activity, CG7826, F10B6.15, stratum pigmentosum retinae, CG11633, culture filtrate, glycyl alcohol, D2Wsu141e, AL022860, Sodium Phenolate, LC-MSMS, CG7835, Gene Products, CG42273, 4-(alpha-D-glucopyranosido)-alpha-glucopyranose, system, polycarbonate R2200, sterile, Carmol, Backgrounds, alpha-malt sugar, anatomical systems, Tissues, Glycerin, beta-Trypsin, F23A5.3, 4733401P19Rik, Cultural Relativisms, Solution, glycerolum, Kochsalz, Customs, Oxybenzene, peptidos, preceding, Chromatographies, Anhydrous, PTHB1, AI047524, Reproductive, 1-alpha-D-Glucopyranosyl-4-alpha-D-glucopyranose, Oxygen 16, Proteins, stepk, Cultural Backgrounds, compositionality, backward, (+)-(10R)-germacrene A synthase activity, buffer, Cell, oxygen, polypeptide, 4-O-alpha-D-glucopyranosyl-, native protein, Natriumchlorid, carbonyldiamide, C18, body system., endoprotease activity, Infertile (finding), MFS1, infertility disorder, Sodium, soda lye, oxygene, NaCl, OXYGEN MOLECULE, AU020952, O2, RPE, increased number, culture supernatant, Alpha-Chymotrypsin Choay, PhOH, SWDS, retinal pigment epithelium, DmelCG11628, p. pigmentosa retinae, ME-IV, plan specification, Gene Proteins, extracellular, Cextromaltose, Carbolsaeure, Phenolate Sodium, Sterility, structure, Relativisms, Aetznatron, liquid chromatography tandem mass spectrometry, deoxyribonucleate pyrimidine dimer lyase (photosensitive), regulation, Relativism, Cultural Relativism, E 948, reversed, liquid chromatography tandem mass spectroscopy, Monohydrate, protein, Malzzucker, (DL)-Isomer, pigmented epithelium, composed of, peptide, Membrane Tissues, Background, Incubator, halite, Glycerol, peptido, 4-O-alpha-D-glucopyranosyl-D-glucose, Detergents, Malt sugar, Min, E948, protein aggregate, DmelCG42273, Carbolic Acid, increased, LCMSMS, reference sample, peptides, E927b, membrane region, pigmented retina, min, mAPC, Karbolsaeure, DNA cyclobutane dipyrimidine photolyase activity, DL-glucose, alpha-D-glucopyranosyl-(1->4)-D-glucose, cloruro sodico, Phenylic acid, SOLO DANCERS, Carbol, l(2)k08110, Actinoplanes sp. (strain 50/110), C16orf53, Grp78, Natriumhydroxid, hydroxyde de sodium, GPHYSD2, alpha-D-Glucopyranosyl-(1->4)-D-glucopyranose, (+)-germacrene A synthase activity, PRE, Membrane Tissue, sterility, HIP4, rock salt, DmelCG4840, deoxyribonucleic cyclobutane dipyrimidine photolyase activity, detergent, LC-MS/MS, Dmel_CG7826, D2Wsu17e, AI836084, infertile, pigmented retinal epithelium, membranous organ component, alpha-D-glucopyranosyl-(1->4)-D-glucopyranose, ur, PHENOL, carbamide, retinal pigment, Sauerstoff, glycerol, 3.1.3.48, hip4, GAS, retinal pigment layer, Dmel_CG7835, Mnb, MNB, Phenolate, Disauerstoff, membrane of organ, NaOH, Step, retinal pigmented epithelium, carbolic acid, MASS, gas, AW124434, natrii chloridum, organ system, phr A photolyase activity, H2NC(O)NH2, DNA-photoreactivating enzyme, D Glucose, STEP, Polypeptide, fertility disorders, Proteomes, 1728, accessory, gluco-hexose, Beliefs, R2200, 4-(alpha-D-glucosido)-D-glucose, Infertile, alpha-D-Glcp-(1->4)-D-Glcp, FBN, Gene, 8O, photoreactivating enzyme activity, baffled, supernumerary, LC-MS-MS, Buffer, cytohesin/GRP1, Karbamid, method, Glycerine, Propanetriol, dioxygene, polypeptide chain, sodium hydroxide, ECTOL1, integral component of membrane, method used in an experiment, Trihydroxypropane, Harnstoff, stratum pigmentosa retinae, Hsce70, phenol, 4-O-alpha-D-glucopyranosyl-D-glucopyranose, SEZ-7, study, MOS3, deoxyribocyclobutadipyrimidine pyrimidine-lyase activity, DmelCG1753, PRECOCIOUS, propane-1, Benzenol, chlorure de sodium, l(2)SH2 0323, soude caustique, OCTD, Table, Neural-specific protein-tyrosine phosphatase, Reproductive Sterility, region of membrane, culture, F23A5_3, Controlled, molecular oxygen, membrane, DYRK1, Controlling, data, culture medium, (beta-D)-Isomer, protein complex, Glyzerin, 6-trans-farnesyl-diphosphate diphosphate-lyase [(+)-germacrene-A-forming] activity, 3-triol, total expressed protein, Hydroxybenzene, Peptide, Belief, stratum pigmentosum (retina), MODIFIER OF SNC1, LC/MS/MS, Sterile, natural protein, Maltose, Protein, deoxyribonucleic photolyase activity, caustic soda, whole membrane, Bioreactor, table salt, Dyrk1, connected anatomical system, l(2)SH0323, WMS2, CYH1, 3-Trihydroxypropane, transmembrane, photolyase activity, uree, urea, CC1, Tripcellim, Cbs, CBS, CGI-97, Membrane, sample population, Anhydrous Dextrose, UREA, Protein Gene Products, present in greater numbers in organism, Trypure, velocity, SSKS, Peptid, proteinase, cbs, CG1753, Glc, sodium chloridepyochelin biosynthetic process, determination, acarbosum, pyochelin formation, 6S)-4, 6-trihydroxy-3-(hydroxymethyl)-2-cyclohexen-1-yl)amino)-alpha-D-glucopyranosyl-(1-4)-O-alpha-D-glucopyr anosyl-(1-4)-, 6 alpha))-4, Proteins, total expressed protein, Gene, proteins, pyochelin synthesis, 4 alpha, 5 beta, 4R, Protein Gene Products, Glumida, 6-trihydroxy-3-(hydroxymethyl)cyclohex-2-en-1-yl]amino}-alpha-D-glucopyranosyl-(1->4)-alpha-D-glucopyranosyl-(1->4)-D-glucopyranose, Gene Proteins, pyochelin biosynthesis, peptide modification, Glucor, acarbose, D-glucose, Bay g 5421, Actinoplanes sp. (strain 50/110), chemical analysis, Protein, Gene Products, Actinoplanes sp. 50/110, pyochelin anabolism, 6-dideoxy-4-(((1S-(1 alpha, peptide formation., 4, assay, relational spatial quality, 5, O-4, Precose, Prandase, location, Proteomes, placement, 6-dideoxy-4-{[(1S, acarbosa, Glucobay, 5Slipids, nucleocytoplasm, determination, region or site annotation, L-arginine, DL-Arginine Acetate, number, DmelCG31137, cleavage, L Isomer, Gene, Monohydrate, protein, protein-containing complex, clefted, CG31137, binding site, CG17741, L-(+)-arginine, peptide, Polypeptides, protein polypeptide chains, peptido, polypeptide chain, (2S)-2-amino-5-(carbamimidamido)pentanoic acid, integral component of membrane, Twin, Gene Products, CG5534, Arg, protein aggregate, cerebro-cerebellar fissure, spinal cord structure, protoplasm, positional, fissura cerebro-cerebellaris, (S)-2-amino-5-guanidinopentanoic acid, protoplast, peptides, twn, ccr4, membrane region, (S)-2-Amino-5-guanidinovaleric acid, R, Arginine, proteins, Monohydrate DL-Arginine Acetate, number of, CT39331, SpC, sample, has or lacks parts of type, region of membrane, L-Arg, site, peptidos, associated, intracellular, L-Arginin, membrane, subdivided, protein complex, Proteins, Arginine Hydrochloride, integral to membrane, arginine, medulla spinalis, fissura cerebrocerebellaris, extra or missing physical or functional parts, membranous organ component, L-Isomer, DL Arginine Acetate, Peptide, Ccr4, CCR4, predicted, mereological quality, polypeptide, native protein, natural protein, L-Isomer Arginine, Protein, chemical analysis, Lipid, whole membrane, Hydrochloride, L Arginine, internal to cell, cerebrocerebellar fissure, region, forked, L-Arginine, transmembrane, membrane of organ, divided, positional polypeptide feature, Algorithm., INSDC_feature:misc_binding, (2S)-2-amino-5-guanidinopentanoic acid, septate, sample population, Protein Gene Products, Gene Proteins, spinal medulla, binding_or_interaction_site, cardinality, Peptid, assay, Polypeptide, BEST:GH20274type 2, Bru, adult onset diabetes, Raw, determination, noninsulin-dependent diabetes mellitus, Glukose, Monohydrate, Visible Light, Malzzucker, (DL)-Isomer, dmTAF[[II]]230, primary metabolites, Glucor, 4-O-alpha-D-glucopyranosyl-D-glucose, Dextrose, hnu, Malt sugar, Actinoplanes sp. 50/110, Non-Insulin Dependent Diabetes Mellitus, 2, 4, 5, O-4, placement, foton, Svc, type II diabetes mellitus, non-insulin dependent diabetes, TFIID TAF250, cel, 6 alpha))-4, D-(+)-maltose, non-insulin dependent diabetes mellitus, proteins, W, type 2 diabetes mellitus, DL-glucose, NIDDM, alpha-D-glucopyranosyl-(1->4)-D-glucose, glucose, type 2 diabetes mellitus non-insulin dependent, Actinoplanes sp. (strain 50/110), type 2 diabetes, severe, associated, alpha-D-Glucopyranosyl-(1->4)-D-glucopyranose, gamma, diabetes mellitis type II, dTAF[[II]]230, Radiation, 6S)-4, 6-trihydroxy-3-(hydroxymethyl)-2-cyclohexen-1-yl)amino)-alpha-D-glucopyranosyl-(1-4)-O-alpha-D-glucopyr anosyl-(1-4)-, TAF200, T2DM - type 2 diabetes mellitus, Light, TAFII-250, 4 alpha, 5 beta, TAF250/230, late onset, alpha-D-glucopyranosyl-(1->4)-D-glucopyranose, 4R, D-maltose, TAFII250, LIGHT, Bay g 5421, relational spatial quality, (alpha-D)-Isomer, 5S, Visible Radiations, D-Glucose, Visible Radiation, HVEML, susceptibility to, Type II Diabetes, CG17603, TAF[[II]], insulin resistance, insulin resistance-related, 6-trihydroxy-3-(hydroxymethyl)cyclohex-2-en-1-yl]amino}-alpha-D-glucopyranosyl-(1->4)-alpha-D-glucopyranosyl-(1->4)-D-glucopyranose, maltobiose, type II, light quantum, acarbose, non-insulin-dependent, Taf250, D Glucose, SR3-5, metabolites, type II diabetes, 6-dideoxy-4-(((1S-(1 alpha, Precose, Glucose Monohydrate, location, acarbosa, Proteomes, hypertension, TAF230, Raw., gluco-hexose, d230, maturity-onset diabetes, 4-(alpha-D-glucosido)-D-glucose, Glucose, alpha-D-Glcp-(1->4)-D-Glcp, secondary metabolites, Gene, dTAFII250, high weight, EfW1, noninsulin dependent diabetes, Ly113, Publication, D-glucose, dmTAF1, Taf230, heavy, Gene Products, 4-(alpha-D-glucopyranosido)-alpha-glucopyranose, non-insulin-dependent diabetes mellitus, Del(8)44H, light, noninsulin-dependent, 4-O-alpha-D-glucopyranosyl-D-glucopyranose, TAF250, study, Taf200, alpha-malt sugar, dTAF[[II]]250, cell, Lichtquant, inhibiteur, Taf1p, Visible, adult-onset diabetes, dTAF250, inhibidor, photon, TR2, TAF, Prandase, association with, 6-dideoxy-4-{[(1S, Anhydrous, diabetes, inhibitors, 1-alpha-D-Glucopyranosyl-4-alpha-D-glucopyranose, data, TAF[[II]]250, (beta-D)-Isomer, acarbosum, Proteins, total expressed protein, inhibitor, l(3)84Ab, BG:DS00004.13, CD258, Cell, dTAF230, 4-O-alpha-D-glucopyranosyl-, Glucosidase, Maltose, p230, chemical analysis, Protein, TAF[[II]]250/230, TFIID, Radiations, Taf[[II]]250, Type 2 Diabetes, Col4a-1, TAF[[II]]230, diabetes mellitus, HVEM-L, Photoradiation, metabolite, TAF[II]250, Anhydrous Dextrose, LTg, diabetes mellitis type 2, Glumida, Protein Gene Products, Gene Proteins, DmelCG17603, Cextromaltose, Photoradiations, protection against, digenic, assay, Glucobay, Glc, TAF1Modb1, Networks, type 2, nucleocytoplasm, Materials, adult onset diabetes, Kinship, determination, noninsulin-dependent diabetes mellitus, selection process, Gene Expression Profile, Profiles, CG3629, CG9729, primary metabolites, Glucor, diseases, Non-Insulin Dependent Diabetes Mellitus, 2, Life Cycle, diseases and disorders, 4, 5, DZO-1, O-4, CG9731, Gpi-1, Leprb, placement, DM - Diabetes mellitus, multicellular organismal biosynthetic process, Family Life Cycle, AI661365, Art, single-organism biosynthetic process, type II diabetes mellitus, human disease, dzo-1, Kinship Network, non-insulin dependent diabetes, Genomes, Nlk, anabolism, 6 alpha))-4, membrane region, nonsyndromic pontocerebellar hypoplasia, proteins, non-insulin dependent diabetes mellitus, W, type 2 diabetes mellitus, Signatures, Ba, NIDDM, inner endospore membrane, plasma membrane lipid bilayer, Diabetes mellitus, type 2 diabetes mellitus non-insulin dependent, medicine, Expression Signature, plasmalemma, Transcriptomes, type 2 diabetes, Homo sapiens disease, associated, severe, Family Life Cycles, establishment and maintenance of asymmetric protein localization, protein localisation, Siderochromes, intracellular, db, NK/GPI, Gpi, CG11962, diabetes mellitis type II, CT36877, dl, DM, cellular protein localisation, 6S)-4, 6-trihydroxy-3-(hydroxymethyl)-2-cyclohexen-1-yl)amino)-alpha-D-glucopyranosyl-(1-4)-O-alpha-D-glucopyr anosyl-(1-4)-, Arts, Expression Profiles, integral to membrane, T2DM - type 2 diabetes mellitus, membranous organ component, 4 alpha, 5 beta, late onset, 4R, predicted, OB-RGRP, l(2)01092, Gene Expression, cellular membrane, juxtamembrane, mOC-X, Bay g 5421, DmelCG3629, species., Expression Signatures, Diseases, BcDNA:LP01770, Genetic Materials, NOS, Pch, PCH, relational spatial quality, NK|GPI, bacterial inner membrane, internal to cell, CG31349, Filiation, Expression Profile, Genetic Material, 5S, Transcriptome Profiles, DLL, ORG, Org, membrane of organ, cell membrane, Pandemic, susceptibility to, Type II Diabetes, Gpi1-r, Gpi1-s, INSDC_feature:gene, Gpi1-t, isolated pontocerebellar hypoplasia, E(Arp), En(Arp), insulin resistance, insulin resistance-related, Obr, Diabetes NOS, 6-trihydroxy-3-(hydroxymethyl)cyclohex-2-en-1-yl]amino}-alpha-D-glucopyranosyl-(1->4)-alpha-D-glucopyranosyl-(1->4)-D-glucopyranose, Life Cycles, type II, disease, dll, acarbose, non-insulin-dependent, CG9763, pontoneocerebllar hypoplasia, Material, Pontoneocerebllar hypoplasia, metabolites, type II diabetes, 6-dideoxy-4-(((1S-(1 alpha, Cistron, asymmetric protein localisation, establishment and maintenance of protein localization, obl, pontoneocerebellar atrophy, Precose, location, acarbosa, Proteomes, DmelCG43140, Bglap-rs1, hypertension, Gpi1s, other disease, bioformation, maturity-onset diabetes, Family Member, Peptidomics, AI461847, Transcriptome Profile, secondary metabolites, Gene, biosynthesis, 9930121L06Rik, Network, noninsulin dependent diabetes, cellular protein localization, l(2)387, D-glucose, integral component of membrane, Diabetes mellitus (disorder), Gene Products, disease or disorder, Pgi, non-insulin-dependent diabetes mellitus, xvt, noninsulin-dependent, protoplasm, study, asymmetric protein localization, Genetic, protoplast, formation, Research, Gpi-1r, Gpi-1s, Profile, Phi, Gpi-1t, obese-like, Siderophore, Pyd/ZO-1, Pyd, CG11782, synthesis, adult-onset diabetes, non-neoplastic, drugs, pyd(Z01), region of membrane, channel localizer activity, disorder, Kinship Networks, Prandase, association with, Family, 6-dideoxy-4-{[(1S, Diabetes, 2.7, integral to plasma membrane, diabetes, Dmel_CG31349, membrane, Transcriptome, Family Research, acarbosum, integral component of plasma membrane, drug, Proteins, disorders, total expressed protein, medical condition, MF, Amf, Cistrons, ZO1, diabetes mellitus (disease), tam, Family Members, Dmel_CG9731, CG12409, Tamou, chemical analysis, Protein, Gene Expression Signatures, whole membrane, condition, ZO-1, Gene Expression Signature, NK, LEPROT, transmembrane, Type 2 Diabetes, diabetes mellitus, metabolite, diabetes mellitis type 2, Glumida, Protein Gene Products, Gene Proteins, extracellular, pontocerebellar hypoplasia, Snm1l, Families, Gene Expression Profiles, Pontoneocerebellar atrophy, protection against, digenic, CG43140, assay, cytoplasmic membrane, Signature, Relatives, Glucobay, hypothesisActinoplanes sp. 50/110, total expressed protein, assay, determination, Proteomes, Actinoplanes sp. (strain 50/110)., chemical analysis394trueProteome Analysis of Actinoplanes sp. SE50/110The acarviose metabolite acarbose is an a glucosidase inhibitor produced by Actinoplanes sp. SE50/110. It is medically important because it is used in the treatment of type 2 diabetes. In this work a comprehensive proteome analysis of Actinoplanes sp. SE50/110 was carried out. The associated txt and RAW files were used for two different analyses and publications. While one study focused on a comparative analysis of Actinoplanes sp. SE50/110 to elucidate differences in the proteome cultures that were grown with either maltose or glucose, the other study applied spectral counting and analyzed only the maltose-grown cultures to determine the major proteins and their location in the cell. The txt files for the comparative data are labeled as "heavy_light" and of the spectral counting data as "light". Both datasets were derived from the same RAW files.2015-10-212015-07-30PXD00149728065516460991804982953585111454224942024527872842188090368093270429330845811363336351524260119834300662758385NCBITaxon:128068888561896111430118726355557114526236493461364031952065126957366649274670738538836411354615821582310665688954762721123294422291180992323122586365458333460792519365914320597129386558195851149315242592637371250232NCBITaxon:127211195774818661488584310430024513586722175543740816918045426683429531945305861266835149822505814963674452158554528113208147956410039237514636942049433208964208963445974137979138712728384400667453293529367156759388036478434716052165994048321659721659545501315282693042165915627161696833218321729204277944762376454317203094980197525556978159509439843948840479NCBITaxon:2157525338551531051067439899037122857759515205968762262311210884555588845587077918178081736309431794571698936160488409859NCBITaxon:37162104782679401505907148364320421061320491381693630355543204663263331199456545351102541110321745921612926420128867641002642036945694101676341021076127735152486713165823925472793342814613584301417298760917463345774449167547604893212873567568403013506219172651813019411192943936711041131023932025559863258278839659104759347495109716049016529983552566317585439801102432608663102459808757417555183201964471452680457966313670190832331156114155355104219325552113834397634981812359871069955529NCBITaxon:4751850298335476113615741465477180066556484337677144137929976798251021699823897641400820840741400821137351155711089725482444474153NCBITaxon:5055789969844100036465349334147147493548019467512991143597412764731370863265478765658936398353221595893669838192011106775772710348198523487802655544794640986099586157187176685991915729513722117110129292107687834974198602028091488406334249234235152335985988655913249746499870392021110729433117113936352721598741908503711708271170828418235024145113969293190219782247463604614712374940237593972328758172253256648905079452659600131972211915853101774208588596NCBITaxon:615750521028307989515586411051989972375059576131720002634196102641088878176179212190659407121906772275885815689964975151950582873757244NCBITaxon:22023717NCBITaxon:17036122019998570506050617476792745062724915961533355418400524643213686150596487844612286662941786661347515363291018194301086731018510184NCBITaxon:1763573039635586331492862876705801321650852718481865368595105135553482260710185687294296110091416333NCBITaxon:619184023210007348824123363630710470058127187878645159812894555663577553470951451225786425011449447260704NCBITaxon:13356262607052607076584574054163677483167233150561007133705654195NCBITaxon:305550445791399878168119011928752829126806315327341478281055524NCBITaxon:9606135858469008111167815022830519302836728593008529005NCBITaxon:5693826883064017946991510118499435258759131515901448242838111394422584416041937047592721204414370860423281677285035158199011951953267386370137024924053608838581622488186156227748817562615835583715333760572671193501998086119350216787910857913711371272407190650371475917262981288057125627457572709030903113335503728142433747924910078711082NCBITaxon:96157243359463318586260799141262200298492670NCBITaxon:12637192812492125283038568385695911692661006581373523756127504542666255151978813566383750644223360094129349790546322453524721401257515115199764990851515143899237453747445446415243235937605920222887051580595536555088157932716029385157811497863389229382894535936479437509173NCBITaxon:685441275422511775299159010901341673871589552101296610306129671585158451584937659393432715910022637673388990461423451287689591198332966467041464792936576164280341160221641331599280382803536909108917688149894621812141080348179392287889295027113133295282829445686174934681911265269972273218903821076012471904007271597369978281143114020641198108713554774365814245072295337969820423212422312916321803347087145372091645733215358157546992877702020603281143193382935508332912922114864374572526499972830357390871830872672710379085507176299707678926837041557372921405365138829412816078395639243142626548982273775611559620732208659588273555169360533079725518113549143213715974953502611595561432138406072587814144733521509493349194963401614334728005936046316461046603815184547448500356709747777195124017484185560133575554792042741580536076994688103762014887100594120037582890931643542826885007123038399001389464940838283594144242322197857742171598921409212205853939621157781154756929793244704749906604162103591905158114452749907312987779913112273170187546991103589915NCBITaxon:37296103609833418710491130798133679531640729946710340157865826453033373306383011306413992530642363650591169654788546981121162034317652616103372861299404458620734011535711195296526117455311147161338654131316634305521323120179836025323731276125523299351299385057316317642619794011513458445772678728623219334151346186208621160791392227983516811961255228149539322323116761757312108077213487999948861856962814084341033517787996321849620994887321392488209711533820961153392095330439375569927612686266447NCBITaxon:269704933986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