AKos
Consulting & Solutions GmbH
Home Company Info Impressum Contact Email

a chemoinformatics company

Create ISIS DB Building Blocks Libraries MDL mol keys Problems Request CD SDFile Viewer Subsets

Home Create ISIS DB Building Blocks Libraries MDL mol keys Problems Request CD SDFile Viewer Subsets

AKosSamples
ca. 10 million building blocks and screening compounds, latest updates February 2, 2010 
 
  SDFiles contain InChI Name and InChI key.

Please use
CWM Global Search to search the AKosSamples by structure.
This is a meta search engine for all compounds that are available on the Internet

Click the file name to begin download, or right click and select "Save Target As" ("Save To Disk" on Netscape) to download the installation file.

Please ask for a CD if you prefer not to download. However, please make sure that you understand that you need some software to search and display SDFiles. You can use the free PCC for small SDFiles, less than 10'000 compounds.

 

Or, use CWM Global Search to search compounds on the Internet by structure. CWM Global Search is 120 Euro per year, but you always can search free-of-charge our database by structure.

 

 

We added combined files. We had to split the files because the very large files create problems during downloads.

Please download in addition the updates, and the individual files that are marked

"not included".

Supplier File Name (click to download; all files are zipped with WinZip or WinRAR) Size byte Number of Com-pounds Update Date (Day. Month. Year) Field name of Order Number Comments Files that are not included in the summary files
I. Building Blocks that are on stock, and can be delivered immediately    (ACD CODEN AKOS)                   
AAK aak0909_sdf 39'731 127 15.09.09 Compound_ID    
ABK abkbb0409_sdf 87'691 287 19.04.2009 Compound_ID    
ABK abkbb1109_update_sdf 304'762 844 16.12.2009 Compound_ID    
AEK aekbb1108_sdf 11'886 39 11 2008 Compound_ID    
AHK ahk0209_sdf 115'240 469 07.02.09 IDNumber    
AKA aka0407_sdf 3'027 6 04 2007 Compound_ID 6 special compounds for LEDs  
AKD akdbb_local_db 7'333 1'211 12 2007      
AKD akdbb0309_sdf 4'351'796 12'437 12.03.2009 Compound_ID    
AKD akdbb0409_upd_sdf 519'760 1603 20.04.09 Compound_ID    
AKD akdbb1109_upd_sdf 219'057 668 17.11.2009 Compound_ID    
AKE akebb0208_sdf 34'562'138 152'054 02 2008 IDNumber    
AKG akgbb0609_sdf 948'421 2'715 09.06.2009 Compound_ID    
AKH akhbb0407_sdf 182'617 1'006 04 2007 IDNumber    
AKI akibb0409_sdf 4'247'397 11'805 09 2008 Compound_ID    
AKI akibbs0509upd_sdf 7'790 23 22.05.2009 Compound_ID    
AKI akibbs1009upd_sdf 154'913 441 23.10.2009 Compound_ID    
AKI akibbs0709upd_sdf 12'524 33 04.08.2009 Compound_ID    
AKI akibbs1209upd_sdf 115'874 329 16.12.2009 Compound_ID    
AKJ akj0709_sdf 2'756'698 6'848 04.08.2009 Compound_ID    
AKK akk0407_sdf 3'380 44 04 2207 IDNumber special boronic acids  
AKL aklbb1008_sdf 7'311'839  20'528 10 2008 Compound_ID 90 % compounds are on stock  
AKM akmbb_0507_sdf 247'877 1'635 05 2007 Compound_ID    
AKN aknbb_0809_sdf 2'260'280 6'679 15.08.09 Compound_ID    
AKR akrbb0406_sdf 5'593'466 19'082 04 2006 Compound_ID    
AKS aksbb0508_sdf 226'704 871 05 2008 Compound_ID    
AKY akybb0507_sdf 315'049 2'245 05 2007 Compound_ID    
AMN amnbb0407_sdf 52'953 628 04 2007 Compound_ID    
AZK azk1108_sdf 792 1 11 2008 Compound_ID    
OWH  owhbb0309_sdf 323'037 983 13.03.2009 Compound_ID    
OWH  owhbbs0509upd_sdf 13'878 39 13.05.2009 Compound_ID    
AKJ akjfs0507_sdf 94'952 188 05 2007 Compound_ID Farbstoffe, Pigments  
II. Screening compounds that are on stock, and can be delivered immediately    (SCD CODEN AKOS-SC)       
All suppliers           Large files were corrupted, and have to be replaced.

no summary files for the moment

ABK abk0209_sdf 3'035'601 7'453 07.03.2009 Compound_ID    
ABK abk_local.db 1'959'539 5'395 10 2008 Compound_ID ISIS/Base file  
AKB akb_stock_1204_sdf 991'375 1'903 12 2004 IDNumber    
AKB akb1209_update_sdf 299'162 663 16.12.09 Compound_ID    
AKD akd1009_sdf 57'181'206 122'895 09.10.09 Compound_ID    
AKD akd1109update_sdf 1'034'125 2071 17.11.2009 Compound_ID    
AKD akd_upd_0210_sdf 2'095'778 4'309 02.02.2010 Compound_ID    
akd_local_db0308 16'091'336   03 2008      
AKE ake0208_sdf 234'360'577 690'018 02 2008 IDNumber    
AKF akf0709_sdf 26'578'729  54'864 09 2008 Compound_ID    
AKG akg0609_sdf 401'604'389 790'380 09.06.2009 Compound_ID    
AKH akh0409_sdf 3'360'569 7'870 04.04.09 Compound_ID    
AKI aki0409_sdf 129'670'677 279'768 04.04.2009 Compound_ID    
AKI aki0509upd_sdf 63'978 163 22.05.2009 Compound_ID    
AKI aki0709upd_sdf 59'474 133 04.08.2009 Compound_ID    
AKI aki1009upd_sdf 3'629 9 23.10.2009 Compound_ID    
AKI aki1209upd_sdf 166'993 386 16.12.2009 Compound_ID    
AKL akls1008_sdf 5'759'439 11'821 10 2008 Compound_ID 80% of the compounds are  on stock.  
AKN akn0809_sdf 130'158'121 327'268 15.08.09 Compound_ID    
AKO organics_0104_sdf 266'183 515 01 2004 ID    
AKP akp_0904_sdf 2'726'741 9'818 04 2004 Compound_ID    
AKR akr0406_sdf 68'547'518 164'001 04 2006 Compound_ID    
AKS aks0508_sdf 8'248'070 22'698 05 2008 Compound_ID    
AKT akt0907_sdf 27'894'632 103'605 09 2007 Compound_ID will be discontinued  
AKY aky0507_sdf 3'601'688 18'269 05 2007 Compound_ID    
OWH  owh0309_sdf 16'635'968 7'725 13.03.2009 Compound_ID    
             
III. Compounds out of stock that need to be resynthesized    (SCD CODEN _XAKOS)                                    
AKD akdbbv0909_sdf 977'452 3'2880 09.10.09 Compound_ID    
AKD akdrupdate1109_sdf 23'848'412 40'772 17.11.2009 Compound_ID    
AKE aker0208_sdf 62'326'369 193'979 02 2008 IDNumber    
AKH akhr0409_sdf 18'922'852 49'387 0..04.2009 Compound_ID    
AKI akibbv0409_sdf 9'854'125 29'036 04.04.2009 Compound_ID    
AKI akibbv0509upd_sdf 558'081 1'814 22.05.2009 Compound_ID    
AKI akibbv0709upd_sdf 41'443 133 04.08.2009 Compound_ID    
AKI akibbv1209upd_sdf 164'043 536 16.12.2009 Compound_ID    
AKI akir0409_sdf 259'848'671 549'664 04.04.2009 Compound_ID    
AKI akir0509upd_sdf 713'631 1'589 22.05.2009 Compound_ID    
AKI akir0709upd_sdf 46'737 134 04.08.2009 Compound_ID    
AKI akir1209upd_sdf 2'690'282 5'713 12.09.2009 Compound_ID    
AKL aklr1008_sdf 209'334'273 442'379 10 2008 Compound_ID    
AKM akmr0507_sdf 233'730 1'635 05 2007 Compound_ID    
AKS aksr1208_sdf 91'679'610 186'471 18.03.2009 Compound_ID    
AKU akubb0208_sdf 127'086 320 02 2008 Compound_ID    
AKU akubb_db 905'216 320 02 2008 Compound_ID ISIS/Base db file  
AKU aku1207_sdf 491'687 1'941 12 2007 Compound_ID    
AKX akx1207_sdf 129'653'737 371'399 12 2007 Compound_ID    
AMN amn0407_sdf 169'043'258 785'720 04 2007 Compound_ID    
OWH owhr0309_sdf 27'075'980 64'906 13.03.2009 Compound_ID   not included
OWH owhbbv0509upd_sdf 35'788 108 23.05.2009 Compound_ID   not included
IV. Compounds that were never synthesized by this supplier. Starting materials are on stock.
AKD akdbbv1208_sdf 773'285 2'563 18.12.2008 Compound_ID    
V. Scaffolds and virtual compounds that need to be synthesized   
ABK abkv1008_sdf.part01.exe  300'000'000 3'816'980 11 2008 Compound_ID Virtual compounds. The chemist is confident that he can synthesize most of them. These compounds will not be part of CHEMCATS. You can search them soon via CWM Global Search.  
ABK abkv1008_sdf.part02.rar 300'000'000          
ABK abkv1008_sdf.part03.rar 300'000'000          
ABK abkv1008_sdf.part04.rar 14'065'783          
AKI aki_scaffolds0905_db 910'138

284 skeletons and examples for each skeleton.

09 2005   ISIS/Base database   
AKD

 

InChI

Delivery time

Create your own Isentris Personal database

From now on we will add the InChI name(http://www.iupac.org/inchi/) and key (http://www.iupac.org/inchi/release102.html)to the SDFiles. The InChI Name was developed first, but this can be quite long. The InChI code was developed so search engines can index it. This is shorter and also unique. The advantage will be that the structures will be searchable by Google in the future.  

We also have in the InChI code fairly short unique description of the structure, and can one day rely on this code instead of on the fairly large SDFiles. There are already programs that can create InChI names from structures and can create structures from InChI names, see picture below .  We have no program yet, that can create structures from InChI key. But this will come. 

We will be one of the first suppliers using this code. We have acquired the software from Xemistry GmbH. This code is very good and handles complex stereochemistry.  

We plan to provide the InChI information in csv files. These are simple tables of Compound_ID and InChI key, InChI Name, indication if the compound is a building block, and comments and can be searched with any editor.

Compound_ID InChIKey
AKA-000001 InChIKey=VFUDMQLBKNMONU-UHFFFAOYAG
AKA-000002 InChIKey=MZYDBGLUVPLRKR-UHFFFAOYAO
AKA-000003 InChIKey=DVNOWTJCOPZGQA-UHFFFAOYAK
AKA-000004 InChIKey=ZVFQEOPUXVPSLB-UHFFFAOYAE
AKA-000005 InChIKey=IYZMXHQDXZKNCY-UHFFFAOYAA
AKA-000006 InChIKey=VIZUPBYFLORCRA-UHFFFAOYAF

Presently, we removed these csv files from the Internet due to space limitations. If you are interested to receive the files, please send us an email.

You can use Symyx Draw (free-of-charge for academia and private use) to generate structures from InChI names and vice versa.

Compounds that are on stock can be delivered in less than 2 weeks after we have received your order. Even if the compounds are on stock it takes some time to get them through custom procedures, which are sometimes time consuming. This is the reason that it takes sometimes two weeks.

Use Isentris Personal Edition to build your own subsets. Building databases with Isentris Personal Edition is automatic by importing an SDFile.

Please contact your local Symyx representative for ordering Isentris Personal Edition. AKos GmbH is your Symyx representative in German speaking Switzerland, Austria, Munich area and former East Germany, and every country East and South from Vienna until Kazakhstan and Egypt.

 

Contact Information
Greta Auf der Maur
Tel. +49 7621 162 2778
Email:


AKos Consulting & Solutions GmbH

Austr. 26
D-78585 Steinen
Germany
Tel.        +49 7627 970068
Fax:       +49 7627 970067
Mobil:    +49 171 526 9392

Fax to Mail
+49 1805 744743 8318
Email:

or

Please, use the keyword "Beilstein" in the subject (reference) Line in the email to make sure that your email does not end up in a spam folder.

For easier downloading purposes, we have divided the collection in portions. Each SDFile has a date. For your in-house database you need to replace the complete SDFile.
There are three different kind of data files. Building blocks are mostly on stock, and can be delivered in gram scales.

C
a. 1'500'000 of the compounds are immediately available. However, we have a network of suppliers and the collection of compounds takes time.
Other files contain compounds that can be resynthesized. Normally a synthesis will take about 4 weeks.


All samples are checked for identity and purity by NMR. 
Estimated prices:

For single orders we charge ca. 300 Euro for compounds with up to 250 mg.

Larger orders and large quantities (> 250 mg) will be priced separately.

Custom Synthesis:

Our suppliers are well prepared for custom synthesis either on a fixed prices basis or for more extended project according to time and material.

Please have a look of some examples of skeletons for which our suppliers have synthesized derivatives.

Special Offer for 0rdering 1000 compounds!

Download ISIS/Base db file (4 MB) or the SDFile (4MB) with 10'496 structures of samples which can be sold in 5 mg weight for  a very special price when ordering more than 1000 compounds.

Download ISIS/Base db file(3 MB) or the SDFile (3MB) with 7'637 structures of samples which can be sold in 20 mg weight for  a very special price when ordering more than 1000 compounds.

The files contain the PASS parameters, more than 22% of the compounds have a drug likeness of > 0.5.

The price includes Certificates of Analysis for each compound (NMR-result 300-500 MHz) in electronic format (PDF, TIF or EMF).

Advertisement:
q-hERG: QUANTUM hERG screening assays.

PASS predicts with 80% probability over 3'000 biological effects, like "Alzheimer Treatment".

View, search, browse and print SDFiles with PCC.

We are working together with REaD VÚFB, s.r.o.in the Czech Republic. This is a small company with a staff of about 10 highly skilled chemists. Their business is drug research and custom synthesis. Please contact us for custom synthesis.

Dr. Zdenek Polivka
Organic Synthesis
REaD VÚFB, s.r.o.,

Poděbradská 56/186
180 66  Praha 9

 
Use the program PASS to predict more than 3'000 biological effects. PASS should be one of  your programs used for in silico screening to filter  com-pounds quickly.

PASS calculates also Drug_Likeness.
This parameter gives in percentage the probability that this structure is drug like. 

Download PASS demo version

More than 100 million compounds can be searched by structure with the

CWM Global Search
This is a meta search engine for all compounds that are available on the Internet

DiscoveryGate (www.discoverygate.com) - you need a license - ask, we can sell you one
eMolecules (www.emolecules.com) - free of charge
CASCAT (stnweb.cas.org) - you need a license
PubChem (http://pubchem.ncbi.nlm.nih.gov/search/) - free of charge
ChemNavigator (www.chemnavigator.com) -needs registration
Molecular Networks (http://www.mol-net.com/akos/) - only a subset is available, but we have a precursor search.
ChemSpider -Database of Chemical Structures and Property Predictions
(www.chemspider.com)
 

PCC (Personal Chemistry Client) - see subsets

  AKos Samples Software Databases CWM PASS PCC Other Newsletter

a chemoinformatics company