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Identify peptides by LC-MS

For analysis of single purified peptides or peptide mixtures

LC-MS/MS analysis is preferable for identification of a single peptide or multiple peptides in a complex solution.

To achieve the highest sensitivity, we separate peptides using RP HPLC coupled to high resolution mass spectrometer. As a result, peptides can be detected and identified by its mass and fragmentation pattern by searching data against peptide databases.

We can search the MS data against the public UniProt database or setup custom designed peptide databases.

The service includes:

  • We perform LC-MS/MS peptide identification.
  • We search the data against sequence database for peptide identity.
  • Finally, you receive the report within a few days.

Please send us a request with a description of your project, so we can tailor your project proposal. 

Services
Identification of single or multiple proteins

ID of peptide – LC-MS/MS (in-solution)

  • LC-MS/MS peptide analysis
  • Search against peptide sequence database
  • ID of 1-100 peptides

$800.00

Fast and Easy
Will be delivered in 4-8 days
Info / Order
Request quote

The peptide or peptide mixture is analyzed by high resolution LC-MS/MS analysis. The analysis is perform on reverse phase chromatography coupled directly to high resolution mass spectrometer.  The MS-MS spectra are used for Mascot database searching. The data are searched against in-house protein database downloaded from UniProt containing all known non-redundant protein sequences or custom designed databases.

Database search
The Mascot software finds matching peptides in the database by their peptide masses and peptide fragment masses. The peptide identification is based on a probability-scoring algorithm (www.matrixscience.com) and the significant best matching peptide is shown in the Results.

Reporting
The identified database peptide sequences are shown in the Results together with the obtained mass spectrometric peptide maps. The peptides used for the identification are highlighted in the sequence and the matching peptides are listed for comparison of the determined and calculated values.

Sample preparation

In-solution samples

Peptides samples can be submitted in solution or lyophilized. Amount ~ 5-50 micrograms

Avoid detergents, DMSO, glycerol and other non-volatile solvents. Keep buffer concentration at a minimum as high salt will interfere with the ionization in the MS. LC-ESI MS can be done on samples containing small amounts of salts, urea or detergent, but the best result are obtained with low buffer strength in volatile solvents without detergents.

Use a Eppendorf Safe Lock tubes, or similar tubes from your lab

Lyophilize or speed vac the peptide to a solid sample to ensure peptide stability during shipment

Alternatively, freeze the sample or refrigerate to +4 oC for cold shipment of the liquid sample.

shipping
Ship your protein samples by a courier company of your own choice

Place your samples into micro tubes and pack in a suitable transport box. Remember to print and include the sample submission form.

  • Contact a courier company of your choice (FedEx, UPS, DHL, TNT, World Courier etc.). Use the following sentence to describe the content: “Protein material – Non-toxic, non-hazardous, for research purpose only“.
  • Use cool packs or cooling units if your samples should be stored below 5°C/40°F
  • Ship the samples to the office closest to you (Canadian customers, please ship to Europe):
Customers in the USA
Alphalyse, Inc.
200 Page Mill Road, Suite 100
Palo Alto, CA, 94306
USA
Att: Jette Williams
Tel: (650) 543-3193
Customers outside of USA
Alphalyse A/S
Unsbjergvej 4 D
DK-5220, Odense
DENMARK
Att: Anette Rasmussen
Tel: +45 6310 6500
shipping
Order a prepaid FedEx Air Waybill < 1 lb./ 500g

A prepaid FedEx Air Waybill can be used for fast and easy shipment of samples in packages up to 1 lb./ 500g.
We will generate a prepaid Air Waybill, prefilled with the correct information, and send it to you by e-mail (PDF-format) within 24 hours.
Then follow these simple instructions:

  • Place your samples into micro tubes. Pack in suitable transport box. Remember to print and include the sample submission form.
  • Print the PDF document and stick it on the transport box or just hand it to your FedEx officer upon pickup.
  • Call to request a pickup from your local FedEx office.

If you plan to send your samples stored at room temperature, this option is usually the right choice. If you fill your box with cooling packs, the weight will most often exceed 1 lb./500g.

shipping
Order a prepaid FedEx Air Waybill < 10 lb./5kg (e.g. for packages with cooling packs)

This prepaid FedEx Air Waybill can be used for shipment of samples in packages up to 10 lb./ 5kg, with or without cooling packs (do not use dry ice!).
We will generate a prepaid Air Waybill, prefilled with the correct information, and send it to you by e-mail (PDF-format) within 24 hours.
Then follow these simple instructions:

  • Place your samples into micro tubes. Pack them in a suitable transport box. Remember to print and include the sample submission form.
  • Fill with cooling units/cold packs (do not use dry ice!).
  • Print the PDF and stick it on the transport box or just hand it to your FedEx officer upon pickup.
  • Call to request a pickup from your local FedEx office.

If you plan to fill your transportation box with cooling packs, select this shipping option. If you plan to use dry ice, you cannot use this Waybill!

shipping
Get a quote for shipment by World Courier

The World Courier service can be used for shipment of samples of all types. If you select this option, we will contact you to provide a quotation based on location and shipping conditions. You will receive a prepaid Air Waybill which will be invoiced together with your analysis results. This is usually a good option if FedEx does not service your location.
With the prepaid World Courier service you get:

  • GxP compliant processes to ensure maximal security and traceability
  • Door-to-door solution on a dedicated vehicle
  • Possibility of providing qualified packaging, temperature monitoring and dry ice
  • Shortest possible transit-time through “next flight out”-procedure
  • Customs clearance and help with paperwork
Order analysis now
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