Professional Protein Identification Services

Professional Protein Identification Services

Proteome Factory offers protein identification by most modern mass spectrometric techniques. To ensure highest sensitivity and reliablilty Proteome Factory uses mostly nanoLC-ESI-MSMS which allows unequivocal identification of one and more proteins within a sample. This is very suitable for analysis of protein bands from SDS-PAGE, protein complexes and other low or medium complex protein samples.
Protein identification results will be provided electronically in one report including protein name, amino acid sequence and molecular weight.

We provide
The protein identification service is applied to protein samples delivered as protein gel spot, protein gel band, lyophilzed, in solution or bound to blotting membrane. Proteins are either analyzed by MALDI-TOFTOF-MS or nanoLC-ESI-MSMS. The latter also identification of several protein within a sample due to peptide separation by nanoLC.

You receive
A result report of protein identification will be send by email or provided via SSL-server as a PDF file containing the results of protein database search.

How to order
Please, contact us and ship the sample together with our protein identification sample submission form signed by you. Below information are provided about sample requirements and shipping. Our sample submission form for protein identification by nanoLC-ESI-MSMS and MALDI-TOFTOF-MS can be downloaded here.

Express Services and Pricing


Protein identification by MSMS peptide fragmentation fingerprint (PFF) analysis

 

Common question in protein identifcation

1. MS compatible staining methods for protein gels
Protein gel staining methods which do not cause irreversible modification of proteins are compatible with protein identification by mass spectrometry like the following: Coomassie Brilliant Blue CBB-R250 and CBB-G250 and fluorescent staining like the ready-to-use FireRuth fluorescent staining solution. If you need a high sensitive silver staining we recommend the FireSilver protein gel staining kit which is more compatible to subsequent protein identification by MS than commonly used methods. Because conventional silver staining methods contain glutaraldehyde or high concentrations of formaldehyde which causes irreversible modification and crosslinking of proteins. These modified protein are badly to identify.

2. Keratin and other contaminations of protein samples
Keratin is a hair and skin protein which occurs almost everywhere in dust and it can easily contaminate lab equipment and reaction tubes because of electrostatic charging. Therefore we recommend using only RNase-free reaction tubes and pipetting tips. These tubes and lab dishes used for staining etc. should be well washed by 0.2 µm filtered Milli-Q water before use. Also it is highly recommendable to use a clean bench to prevent direct contamination of protein gels by dust and skin particles.


2DE gel stained by MS compatible FireSilver silver staining kit

Recommendations for sample shipping

Fill protein identification order form with information about the samples (e.g. sample name, sample type, MW, estimated protein amount, staining method) and the requested type of MS analysis, sign the form.
Inform us by email or phone that your sample will be shipped.
Transfer your protein spot or band in a 0.5 ml reaction tube without addition of any liquid.
Seal your sample in a reaction tube by plastic wrap.
Liquid samples should be shipped in a frozen state. Protein bands and protein spots can be shipped at room temperature.
Ship the samples in a padded envelope or box together with the protein identification order form.

Shipping address
Proteome Factory AG
Magnusstr. 11
DE-12489 Berlin

Data security and secrecy
Proteome Factory takes security of your data and research results seriously. Therefore critical data are only internally used by our experts involved in the analysis task or research project. Communication via internet and email can be performed by using common safety and encryption techniques on request. Your data will be stored on redundant and fail-proof data storage servers.
On request a non-disclosure agreement can be signed.


 

Express Service

Express Service: Protein identification analysis by nanoLC-ESI-MSMS within a week
We offer an Express Service for protein identification within 3-7 days after arrival of your sample.

Next-Day Service: Protein identification analysis by nanoLC-ESI-MSMS within a day.
We offer a Next-Day Service for protein identification within one day after arrival of your sample. The sample must arrive on a workingday before 12am. We recommend for this service an overnight shipping service with guarantied delivery next day before noon. This service is only available by contacting us in advance.


Protein Identification - Prices for Europe

(effective 15th April 2012)


Protein identification by nanoLC-ESI-MSMS

High sensitive protein identification by nanoLC-ESI-MSMS. This protein identification service is recommended for protein bands from PAGE gels, protein spots from 2DE gels and simple protein mixtures. nanoLC-ESI-MSMS protein identification results mostly in better protein identification and higher confidential sequence coverages than MALDI-MS analyses due to nanoLC separation of the proteolytical peptides. This yields much more MSMS peptide fragmentation fingerprint analyses resulting in mostly significantly higher protein identification scores by database searching. By default the MSMS data are searched against NCBInr protein database. Additional databases or databases provided by customer can be used in request.

 

Protein identification
(by Qtof mass spectrometry)

 

     
for samples with one to a few proteins
(short gradient)

Order No.  

Price per sample [EURO]
Standard Service
(1-2 weeks)
 
Order No.   Price per sample [EURO]
Express Service
(2-4 days)
 
1 sample S041001 300 S041001E 400
2 - 9 samples S041002 250 S041002E 350
10 - 24 samples S041010 225 S041010E 300
25 - 49 samples S041025 190    
50 - 74 samples S041050 160    
75 - 99 samples S041075 130    
100 and more samples S041100 100    
         
for samples with up to 10 proteins

Order No.  

Price per sample [EURO]
Standard Service
(1-2 weeks)
 
Order No.   Price per sample [EURO]
Express Service
(2-4 days)
 
1 sample S051001 360 S051001E 480
2 - 9 samples S051002 300 S051002E 400
10 - 24 samples S051010 270 S051010E 360
25 - 49 samples S051025 225    
50 - 74 samples S051050 190    
75 - 99 samples S051075 155    
100 and more samples S051100 120    
         
for samples with more than 10 proteins
(long gradient)

Order No.  

Price per sample [EURO]
Standard Service
(1-2 weeks)
 
Order No.   Price per sample [EURO]
Express Service
(2-4 days)
 
1 sample S061001 450 S061001E 600
2 - 9 samples S061002 375 S061002E 500
10 - 49 samples S061010 335    
50 - 99 samples S061050 280    
100 and more samples S061100 235    
         

High resolution nanoLC-ESI-MSMS

Protein identification by
high resolution mass spectrometry


 

     
for samples with 10-25 proteins

Order No.  

Price per sample [EURO]
Standard Service
(1-2 weeks)
 
Order No.   Price per sample [EURO]
Express Service
(2-4 days)
 
1 sample S071001 upon request S071001E upon request
2 - 9 samples S071002 upon request S071002E upon request
10 and more samples S071010 upon request    
         
for samples with more than 25 proteins

Order No.  

Price per sample [EURO]
Standard Service
(1-2 weeks)
 
Order No.   Price per sample [EURO]
Express Service
(2-4 days)
 
1 sample S081001 upon request S071001E upon request
2 - 9 samples S081002 upon request S071002E upon request
10 and more samples S081010 upon request    
         

 

Add-On services for protein identification

Sample preparation

Order No.  

Price per sample [EURO]
   
Deglycosylation by PNGase F for one sample S088001 on request    
Deglycosylation by PNGase F for 2 to 4 samples S088002 on request    
Deglycosylation by PNGase F for 5 or more samples S088005 on request    
         
Data analysis

 


   
Custom database search
(database setup and search)
S081001 200    
de novo peptide sequencing with BLAST search S081002 400    
manual data evaluation by a scientist
(200 € per hour)
S081005 200    
         
         

Further protein characterisation

 

Order No.  

Price per sample [EURO]
Identification of phosphorylation sites** S091001 on request
Identification of glycosylation sites** S092001 on request
Analysis of disulfide bridges S093001 on request
     

LCMS-based proteomics, quantitative proteomics

 

Order No.  

Price per sample [EURO]
iTRAQ based quantitative proteomics S100000 on request
MudPIT proteomics S110000 on request

nanoLC-ESI-MSMS based proteomics
with quantification by spectral counting

S120000 on request
     


 



 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 

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