The NPS@ Web server
NPS@ stands for Network Protein
NPS@ is an interactive Web server dedicated to protein sequence analysis and available
for the biologist community at URL: https://npsa-prabi.ibcp.fr/.
NPS@ is the "protein part" of the "Pôle
Bio-Informatique Lyonnais" (PBIL).
What kind of analysis can you carry out with NPS@ ?
- Sequence similarity search with
on protein databases such as
SWISS-PROT, SP-TrEMBL or NRL_3D.
- Sites and signatures detection with
PATTINPROT allow a search of one or several pattern on a protein
database or on an individual sequence. PROSCAN scan a protein sequence against PROSITE.
- Multiple alignment with
- Secondary structure prediction with 12 differents methods and a
consensus prediction of those methods. Available methods
- Primary structure analysis such as :
physico-chemical profiles (7 profiles),
coil-coiled detection (Lupas method),
helix-turn-helix DNA-binding motifs preditcion (Dodd & Egan),
amino-acids composition and
What do you need to use NPS@ ?
- a sequence (HELP).
- a sequence base in Pearson/FASTA format (HELP).
- a pattern with PROSITE syntax (HELP).
What are NPS@'s strong points ?
- All methods proposed by NPS@ are piped.
The ouput of one method could be the input of another one.
For example, after you've performed a BLAST search, you can make a database of full or partial sequences. Thenafter, this database
could be aligned by multiple alignment programs (CLUSTALW,MULTALIN), filtered by a pattern search (PATTINPROT) or you can apply
NPS@'s methods on each sequence of the database. And this, with no cut and paste.
- You can insert secondary structure prediction in multiple alignment.
- You can upload your own database and apply
NPS@'s methods on it.
- You can download NPS@'s data in
protein sequence analysis softwares on your local computer for further analysis, to save them or insert them in an article...
- The NPSA link allows you to apply NPS@'s methods on a sequence. Even
more, when the sequence comes from a 3D database (NRL-3D), you have some useful links to retrieve and work with 3D data.
- NPS@ offers links on international databases (SWISSPROT, PROSITE, CATH, SCOP,...).
- NPS@ works with data of an ACNUC
NPS@'s help index.
On the CPU time allowed on NPS@
The CPU time can't be above 3 hours for a job. For bigger job, you can
NPS@'s flow chart
April 9th, 1998 : NPS@ version 1 is available. This first version was written by G.DELEAGE, C.COMBET, C.GEOURJON
April 2th, 1999 : NPS@ version 2 is available. This second version was written by C.COMBET, C.GEOURJON,
C.BLANCHET and G.DELEAGE.
NPS@ is the "little web brother" of ANTHEPROT and MPSA softwares. The guiding philosophy is the same for these
two softwares and for this "webware".
We hope they are useful and easy-to-use...
To cite NPS@
NPS@: Network Protein Sequence Analysis
TIBS 2000 March Vol. 25, No 3 :147-150
Combet C., Blanchet C., Geourjon C. and Deléage G.
We will be glad to receive a reprint of article citing NPS@.
This will be a contribution and an encouragement in developping this server.
Who are we
number of jobs performed