Tandem mass spectrometry (MS/MS) is often used within the identification of peptides and proteins. Typical <em>proteomic</em> experiments depend on algorithms corresponding to SEQUEST and MASCOT to match hundreds of tandem mass spectra towards the theoretical fragment ion spectra of peptides in a database. The chances that these spectrum-to-sequence assignments are appropriate may be decided by statistical <em>software program</em> corresponding to PeptideProphet or by estimations based mostly on reverse or decoy databases. Nonetheless, most of the <em>software program</em> functions that assign possibilities for MS/MS spectra to sequence matches have been developed utilizing coaching knowledge units from <em>3D</em> ion-trap mass spectrometers.
Given the number of forms of mass spectrometers which have turn out to be commercially out there over the past 5 years, we sought to generate a knowledge set of reference knowledge protecting a number of instrumentation platforms to facilitate each the refinement of present computational approaches and the event of novel <em>software program</em> instruments. We analyzed the proteolytic peptides in a mix of tryptic digests of 18 proteins, named the “ISB commonplace protein combine”, utilizing eight completely different mass spectrometers. These embody linear and <em>3D</em> ion traps, two quadrupole time-of-flight platforms (qq-TOF), and two MALDI-TOF-TOF platforms. The ensuing knowledge set, which has been named the Commonplace Protein Combine Database, consists of over 1.1 million spectra in 150+ replicate runs on the mass spectrometers.
We have now developed a software program device known as MassSorter for administrating and analyzing knowledge from peptide mass fingerprinting experiments on proteins with recognized amino acid sequences. It’s meant for small scale mass spectrometry laboratories which can be occupied with posttranslational modifications of recognized proteins. A number of experiments may be in contrast concurrently, and the matched and unmatched peak values are clearly indicated. The hits may be sorted in accordance with m/z values (default) or in accordance with the sequence of the protein. Filters outlined by the consumer can mark autolytic protease peaks and different contaminating peaks (keratins, proteins co-migrating with the protein of curiosity, and so on.).
Comparative analysis of two two-dimensional gel electrophoresis picture evaluation software program functions utilizing synovial fluids from sufferers with joint illness.
The <em>proteomic</em> composition of synovial fluid (SF) might maintain clues to understanding the molecular foundation of arthritis. Nonetheless, the extremely viscous nature and <em>proteomic</em> complexity of SF current a problem when analyzing outcomes obtained by two-dimensional gel electrophoresis (2D-GE). A number of <em>software program</em> functions can be found for analyzing 2D-GE photos. Regardless of inherent strengths and weaknesses, no comparability between these functions has been reported utilizing SF or any human fluid specimens. We evaluated two widespread <em>software program</em> packages–PDQuest and Progenesis Workstation–for spot detection, matching, and quantitation of 2D-GE photos of SF from 4 sufferers with arthritic illness.
Initially, complete 2D-gel photos have been analyzed for spot detection, which recommended that PDQuest is extra constant than Progenesis; nevertheless, PDQuest appeared to require extra consumer intervention than Progenesis. Subsequently, two small areas (spots nicely resolved and spots not nicely resolved) have been chosen from every gel picture, which have been analyzed by the <em>software program</em> for spot detection, matching, quantity, and backbone. These analyses counsel that each instruments can quantify well-resolved spots comparatively constantly when put next with guide spot detection (the “gold commonplace”).
The “<em>3D</em> viewer” possibility supplied by each instruments permits appropriate spot identification and matching. The strengths and weaknesses of those laptop instruments can present steerage within the selection of a specific workstation for figuring out biomarkers of arthritis. Unmatched peaks may be additional analyzed for surprising modifications by searches towards a neighborhood model of the UniMod database. They will also be analyzed for surprising cleavages, a extremely helpful characteristic for proteins that bear maturation by proteolytic cleavage, creating new N- or C-terminals.
Complete understanding of organic techniques requires environment friendly and systematic assimilation of high-throughput datasets within the context of the present data base. A significant limitation within the area of <em>proteomics</em> is the dearth of an acceptable <em>software program</em> platform that may synthesize numerous experimental datasets within the context of the present data base. Right here, we describe a <em>software program</em> platform, termed PROTEOME-<em>3D</em>, that makes use of three important options for systematic evaluation of <em>proteomics</em> knowledge:
creation of a scalable, queryable, personalized database for recognized proteins from revealed literature; graphical instruments for displaying proteome landscapes and developments from a number of large-scale experiments; and interactive knowledge evaluation that facilitates identification of essential networks and pathways. Thus, PROTEOME-<em>3D</em> provides a standardized platform to research high-throughput experimental datasets for the identification of essential gamers in co-regulated pathways and mobile processes.
pdb-care (PDB carbohydrate residue verify): a program to help annotation of advanced carbohydrate buildings in PDB information.
Carbohydrates are concerned in quite a lot of basic organic processes and pathological conditions. They due to this fact have a big pharmaceutical and diagnostic potential. Information of the <em>3D</em> construction of glycans is a prerequisite for a whole understanding of their organic capabilities. The biggest supply of biomolecular <em>3D</em> buildings is the Protein Knowledge Financial institution. Nonetheless, about 30% of all 1663 PDB entries (model September 2003) containing carbohydrates comprise errors in glycan description. Sadly, no <em>software program</em> is at present out there which aligns the <em>3D</em> info with the reported assignments. It’s the intention of this work to fill this hole.
 Anti-Flag magnetic beads |
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B26101 |
Bimake |
1 mL |
EUR 483 |
|
Description: Anti-Flag magnetic beads is based on hydroxyl magnetic beads covalently coupling with mouse IgG1 monoclonal antibody. It is recommended to use for co-immunoprecipitation and protein purification. |
Anti-Flag magnetic beads |
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B26102 |
Bimake |
5 mL |
EUR 1452 |
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Description: Anti-Flag magnetic beads is based on hydroxyl magnetic beads covalently coupling with mouse IgG1 monoclonal antibody. It is recommended to use for co-immunoprecipitation and protein purification. |
 Anti-HA magnetic beads |
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B26201 |
Bimake |
1 mL |
EUR 483 |
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Description: Anti-HA magnetic beads kit is based on hydroxyl magnetic beads covalently coupling with high quality mouse IgG2b monoclonal antibody, used for co-immunoprecipitation and protein purification. |
Anti-HA magnetic beads |
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B26202 |
Bimake |
5 mL |
EUR 1452 |
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Description: Anti-HA magnetic beads kit is based on hydroxyl magnetic beads covalently coupling with high quality mouse IgG2b monoclonal antibody, used for co-immunoprecipitation and protein purification. |
 Anti-Myc magnetic beads |
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B26301 |
Bimake |
1 mL |
EUR 483 |
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Description: Anti-Myc magnetic beads kit is based on hydroxyl magnetic beads covalently coupling with mouse IgG1 monoclonal antibody.it is recommended to use for co-immunoprecipitation and protein purification. |
Anti-Myc magnetic beads |
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B26302 |
Bimake |
5 mL |
EUR 1452 |
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Description: Anti-Myc magnetic beads kit is based on hydroxyl magnetic beads covalently coupling with mouse IgG1 monoclonal antibody.it is recommended to use for co-immunoprecipitation and protein purification. |
 Protein A Magnetic Beads |
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6507-1 |
Biovision |
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EUR 262 |
 Protein G Magnetic Beads |
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6517-1 |
Biovision |
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EUR 262 |
 Protein L Magnetic Beads |
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6537-1 |
Biovision |
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EUR 294 |
 30 mL) Magnetic Beads (DNA) 30 mL |
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P920-30 |
101Bio |
- |
Ask for price |
 450 mL) Magnetic Beads (DNA) 450 mL |
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P920-450 |
101Bio |
- |
Ask for price |
 5 mL) Magnetic Beads (DNA) 5 mL |
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P920-5 |
101Bio |
- |
Ask for price |
 60 mL) Magnetic Beads (DNA) 60 mL |
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P920-60 |
101Bio |
- |
Ask for price |
 Protein A/G Magnetic Beads |
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6527-1 |
Biovision |
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EUR 294 |
 Magnetic Beads for DNA Purification |
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M1502-5 |
Biovision |
5 ml |
EUR 277 |
 Protein A/G/L Magnetic Beads |
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6547-1 |
Biovision |
|
EUR 338 |
 Protein A/G Magnetic Beads for IP |
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B23201 |
Bimake |
1 ml |
EUR 132 |
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Description: Protein A/G Magnetic Beads for immunoprecipitation (IP) are based on a biological nanosurface technology (S-TEC). Protein A/G coats the surface of super paramagnetic microspheres with high coating density up to 9.3 × 10^13 molecules/cm2. Compared to similar immune magnetic beads, our Protein A/G beads display much more antibody binding sites therefore using less magnetic beads per reaction and ultimately achiving greater cost-efficiency. Non-specific binding is reduced to an absolute low eliminating any detectable interference with your IP assays. The large, specific surface area of the beads greatly shortens the adsorption time and achieves complete antibody/antigen adsorption process in 10 minutes and complete total purification and precipitation in just 30 minutes. This product can be used on a wide variety of samples, such as in cell lysates, supernatants collected from cell secretion, serum, ascites, and other immune antigens. |
Protein A/G Magnetic Beads for IP |
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B23202 |
Bimake |
5 ml |
EUR 465 |
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Description: Protein A/G Magnetic Beads for immunoprecipitation (IP) are based on a biological nanosurface technology (S-TEC). Protein A/G coats the surface of super paramagnetic microspheres with high coating density up to 9.3 × 10^13 molecules/cm2. Compared to similar immune magnetic beads, our Protein A/G beads display much more antibody binding sites therefore using less magnetic beads per reaction and ultimately achiving greater cost-efficiency. Non-specific binding is reduced to an absolute low eliminating any detectable interference with your IP assays. The large, specific surface area of the beads greatly shortens the adsorption time and achieves complete antibody/antigen adsorption process in 10 minutes and complete total purification and precipitation in just 30 minutes. This product can be used on a wide variety of samples, such as in cell lysates, supernatants collected from cell secretion, serum, ascites, and other immune antigens. |
 FFPE Tissue DNA Extraction Kit - Magnetic Beads |
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K5011450 |
Biochain |
1 kit |
EUR 256 |
 Magnetic Beads-conjugated Mouse anti DDDDK-Tag mAb |
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AE037 |
Abclonal |
50 ul |
EUR 176 |
 Trypsin, Recombinant, Proteomics grade |
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P1228-1000 |
Biovision |
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EUR 196 |
Trypsin, Recombinant, Proteomics grade |
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P1228-10000 |
Biovision |
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EUR 1224 |
Trypsin, Recombinant, Proteomics grade |
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P1228-5000 |
Biovision |
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EUR 615 |
 ELISA Kit) Human Complement Component 4 (C4) ELISA Kit |
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DLR-C4-Hu-48T |
DL Develop |
48T |
EUR 479 |
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|
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Description: A sandwich quantitative ELISA assay kit for detection of Human Complement Component 4 (C4) in samples from serum, plasma, tissue homogenates, cell lysates, cell culture supernates or other biological fluids. |
Human Complement Component 4 (C4) ELISA Kit |
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DLR-C4-Hu-96T |
DL Develop |
96T |
EUR 621 |
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|
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Description: A sandwich quantitative ELISA assay kit for detection of Human Complement Component 4 (C4) in samples from serum, plasma, tissue homogenates, cell lysates, cell culture supernates or other biological fluids. |
 ELISA Kit) Mouse Complement Component 4 (C4) ELISA Kit |
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DLR-C4-Mu-48T |
DL Develop |
48T |
EUR 489 |
|
|
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Description: A sandwich quantitative ELISA assay kit for detection of Mouse Complement Component 4 (C4) in samples from serum, plasma or other biological fluids. |
Mouse Complement Component 4 (C4) ELISA Kit |
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DLR-C4-Mu-96T |
DL Develop |
96T |
EUR 635 |
|
|
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Description: A sandwich quantitative ELISA assay kit for detection of Mouse Complement Component 4 (C4) in samples from serum, plasma or other biological fluids. |
 ELISA Kit) Rat Complement Component 4 (C4) ELISA Kit |
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DLR-C4-Ra-48T |
DL Develop |
48T |
EUR 508 |
|
|
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Description: A sandwich quantitative ELISA assay kit for detection of Rat Complement Component 4 (C4) in samples from serum, plasma, tissue homogenates, cell lysates, cell culture supernates or other biological fluids. |
Rat Complement Component 4 (C4) ELISA Kit |
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DLR-C4-Ra-96T |
DL Develop |
96T |
EUR 661 |
|
|
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Description: A sandwich quantitative ELISA assay kit for detection of Rat Complement Component 4 (C4) in samples from serum, plasma, tissue homogenates, cell lysates, cell culture supernates or other biological fluids. |
Human Complement Component 4 (C4) ELISA Kit |
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RD-C4-Hu-48Tests |
Reddot Biotech |
48 Tests |
EUR 478 |
Human Complement Component 4 (C4) ELISA Kit |
|
RD-C4-Hu-96Tests |
Reddot Biotech |
96 Tests |
EUR 662 |
Mouse Complement Component 4 (C4) ELISA Kit |
|
RD-C4-Mu-48Tests |
Reddot Biotech |
48 Tests |
EUR 489 |
Mouse Complement Component 4 (C4) ELISA Kit |
|
RD-C4-Mu-96Tests |
Reddot Biotech |
96 Tests |
EUR 677 |
Human Complement Component 4 (C4) ELISA Kit |
|
RDR-C4-Hu-48Tests |
Reddot Biotech |
48 Tests |
EUR 500 |
Human Complement Component 4 (C4) ELISA Kit |
|
RDR-C4-Hu-96Tests |
Reddot Biotech |
96 Tests |
EUR 692 |
Mouse Complement Component 4 (C4) ELISA Kit |
|
RDR-C4-Mu-48Tests |
Reddot Biotech |
48 Tests |
EUR 511 |
Mouse Complement Component 4 (C4) ELISA Kit |
|
RDR-C4-Mu-96Tests |
Reddot Biotech |
96 Tests |
EUR 709 |
 Latex Beads |
|
abx291003-1L |
Abbexa |
1 L |
EUR 2332 |
|
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 RNA Beads |
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20-abx298002 |
Abbexa |
-
EUR 217.00
-
EUR 398.00
-
EUR 1386.00
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 Exorose Beads |
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EXOB-100 |
ABTBeads |
100 ml |
EUR 106 |
Exorose Beads |
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EXOB-25 |
ABTBeads |
25 ml |
EUR 58 |
Exorose Beads |
|
EXOB-250 |
ABTBeads |
250 ml |
EUR 188 |
 Glass Beads 0.1mm |
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GB01 |
Next Advance |
1pack |
EUR 108 |
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Description: Glass beads. 0.1mm. 1 lb. Non-sterile. |
 Glass Beads 0.5mm |
|
GB05 |
Next Advance |
1pack |
EUR 103 |
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Description: Glass beads. 0.5mm. 1 lb. Non-sterile. |
 Glass Beads 1.0mm |
|
GB10 |
Next Advance |
1pack |
EUR 103 |
|
Description: Glass beads. 1.0mm. 1 lb. Non-sterile. |
 V5 agarose beads |
|
AE029-100ul |
Abclonal |
100 ul |
Ask for price |
V5 agarose beads |
|
AE029-50ul |
Abclonal |
50 ul |
Ask for price |
V5 agarose beads |
|
AE029-200ul |
Abclonal |
200 ul |
EUR 228 |
V5 agarose beads |
|
AE029-20ul |
Abclonal |
20 ul |
Ask for price |
 RanBP1 Agarose Beads |
|
STA-421 |
Cell Biolabs |
400 µg |
EUR 572 |
|
Description: RanBP1 Agarose Beads selectively pull down the active form of Ran. Beads are colored to allow for a visual check. These are the same beads supplied with our Small GTPase Activation Assays. 400 µg. |
 Sodium hydroxide, Beads |
|
SB6789 |
Bio Basic |
500g |
EUR 61.01 |
|
|
 Streptavidin-Sepharose Beads |
|
6565-10 |
Biovision |
|
EUR 697 |
Streptavidin-Sepharose Beads |
|
6565-100 |
Biovision |
|
Ask for price |
Streptavidin-Sepharose Beads |
|
6565-2 |
Biovision |
|
EUR 229 |
Streptavidin-Sepharose Beads |
|
6565-5 |
Biovision |
|
EUR 403 |
 EZEnrich? Polyubiquitin Beads |
|
6568-300 |
Biovision |
|
EUR 370 |
 Thrombin Sepharose Beads |
|
7925-1 |
Biovision |
|
EUR 218 |
Thrombin Sepharose Beads |
|
7925-25 |
Biovision |
|
EUR 1762 |
Thrombin Sepharose Beads |
|
7925-5 |
Biovision |
|
EUR 697 |
 Plasmin Sepharose Beads |
|
7926-1 |
Biovision |
|
EUR 218 |
Plasmin Sepharose Beads |
|
7926-25 |
Biovision |
|
EUR 1762 |
Plasmin Sepharose Beads |
|
7926-5 |
Biovision |
|
EUR 697 |
 Urokinase Sepharose Beads |
|
7927-1 |
Biovision |
|
EUR 218 |
Urokinase Sepharose Beads |
|
7927-25 |
Biovision |
|
EUR 1762 |
Urokinase Sepharose Beads |
|
7927-5 |
Biovision |
|
EUR 697 |
 Immobilized Catalase Beads |
|
7931-1 |
Biovision |
|
EUR 153 |
Immobilized Catalase Beads |
|
7931-10 |
Biovision |
|
EUR 588 |
 Calmodulin-Sepharose Beads |
|
7934-1 |
Biovision |
|
EUR 153 |
Calmodulin-Sepharose Beads |
|
7934-10 |
Biovision |
|
EUR 479 |
Calmodulin-Sepharose Beads |
|
7934-5 |
Biovision |
|
EUR 338 |
 Bovine C4/ Complement C4 ELISA Kit |
|
E0044Bo |
Sunlong |
1 Kit |
EUR 717 |
 Rat C4/ Complement C4 ELISA Kit |
|
E1056Ra |
Sunlong |
1 Kit |
EUR 571 |
 C4 Antibody |
|
49604-100ul |
SAB |
100ul |
EUR 333 |
C4 Antibody |
|
49604-50ul |
SAB |
50ul |
EUR 239 |
 Size Selection DNA Beads |
|
20-abx298001 |
Abbexa |
-
EUR 217.00
-
EUR 398.00
-
EUR 1386.00
|
|
|
|
 Stainless Steel Beads 0.2mm |
|
SSB02 |
Next Advance |
1pack |
EUR 191 |
|
Description: Stainless steel beads. 0.2mm. 1 lb. Non-sterile. |
 Stainless Steel Beads 0.5mm |
|
SSB05 |
Next Advance |
1pack |
EUR 191 |
|
Description: Stainless steel beads. 0.5mm. 1 lb. Non-sterile. |
 Stainless Steel Beads 1.6mm |
|
SSB16 |
Next Advance |
1pack |
EUR 254 |
|
Description: Stainless steel beads. 1.6mm. 1 lb. Non-sterile. |
 Stainless Steel Beads 2.3mm |
|
SSB23 |
Next Advance |
1pack |
EUR 217 |
|
Description: Stainless steel beads. 2.3mm. 1 lb. Non-sterile. |
 Stainless Steel Beads 3.2mm |
|
SSB32 |
Next Advance |
1pack |
EUR 184 |
|
Description: Stainless steel beads. 3.2mm. 1 lb. Non-sterile. |
Trying up a translation desk the place systematic names and the respective PDB residue codes are listed, each assignments are in contrast and inconsistencies are reported. Moreover, the reliability of reported and calculated connectivities for molecules listed inside the HETATOM information is checked and strange values are reported.
