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AACompIdent
Free constellation


Documentation and references are available.
Warning: This program is resource consuming. Please use it only if your constellation does not exist in the main AACompIdent page.

This is the free constellation form of the AACompIdent program. You may select any amino acid constellation you like.

You just have to fill in the composition values for the selected amino acids (in the Unknown protein column). The program will then normalize the values, so that the total makes 100.0. You may give a name to your protein, and also specify pI and Mw values.

The OS or OC (Organism Species or Organism Classification) field allows you to specify terms to limit the search to a range of organisms or to a specific organism (species). A Swiss-Prot / TrEMBL entry will only be returned, if all the given terms appear in either the OS or OC lines of that entry. If in doubt, please consult the Swiss-Prot list of species.

Scan in Swiss-Prot can be restricted by the use of a keyword. This should be a keyword in the Swiss-Prot KW lines. If in doubt, consult the Swiss-Prot list of keywords.

When searching in Swiss-Prot, AACompIdent removes signal sequences and/or propeptides (as documented in the Swiss-Prot feature table (FT lines)) before computing AA composition, pI and Mw for each of the resulting chains.

The annotation in TrEMBL is done automatically; it is incomplete and not always correct. Thus information on TrEMBL FT lines is not used to process TrEMBL proteins into mature chains or peptides (i.e. AA composition, pI and Mw are always computed for the whole sequence), and the use of a keyword is not allowed for searches in TrEMBL.

Additional options are available at the bottom of this page.

The results will be sent back by e-mail.

This program is resource consuming. Please use it only if no other way exists.


Please fill out the following form, then press the Run AACompIdent button.

Your e-mail address:


Unknown protein

Name:

pI: pI range:
Mw (in Daltons, not kD): Mw range (in percent):

Term from OS or OC lines:
(example: HOMO SAPIENS or MAMMALIA)

Keyword from KW lines (for search in Swiss-Prot only):
(example: PLASMA or SOS RESPONSE)


Calibration protein

If you have analysed a calibration protein in parallel with unknowns as part of your AA analysis procedure, specify the Swiss-Prot ID name for that protein and enter its experimentally determined AA composition (in the Calibration protein column).

Protein ID: (example: ALBU_BOVIN)


The bias and weight columns are provided in order to account for permanently biased amino acid values, respectively to change the weight of individual amino acids.

Composition for: 



   Unknown      Calibration

   protein:       protein:        Bias:      Weight:

Asp:                      

Asn:                     

Asx:                     



Glu:                     

Gln:                       

Glx:                     



Ser:                      

His:                     

Gly:                      

Thr:                      

Ala:                     

Pro:                      

Tyr:                      

Arg:                     

Val:                      

Met:                      

Cys:                      



Ile:                      

Leu:                      

Jeu:                     



Trp:                     

Phe:                      

Lys:                     




Database(s) on which the scan should be performed:
Swiss-Prot
Swiss-Prot and TrEMBL
TrEMBL
To perform the search: or to clear all fields!

Options

Number of proteins to search for:

First, Swiss-Prot / TrEMBL entries for the given species are searched and the most similar ones displayed. Then, all Swiss-Prot / TrEMBL entries are searched. Finally, only the protein entries for which the theoretical pI and Mw lie within the given ranges are searched.

Tagging
With this option, 40 amino acids of sequence for each protein are printed in the results, instead of the protein description. You may optionally also enter a tag which will be matched with the sequences. 'X' can be used to mean 'any amino acid'.
Tag (up to 6 amino acids):

Search for all possible tag permutations.

Display the N-terminal sequence or the C-terminal sequence or the (internal) area of the protein sequence that matches your tag.