Resonance Assignment/Abacus/Protein Sequence format: Difference between revisions

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'''1. Fasta format.'''
__TOC__


The first line shoul start with '>' symbol.  
== '''1. Fasta format.'''  ==
 
The first line should start with '>' symbol.  


Next one or more lines contain sequence in 1-letter code.  
Next one or more lines contain sequence in 1-letter code.  


<br>


 
''Example 1.1:<br>''  
''Example 1:<br>''
<pre>&gt;
<pre>&gt;
MDSKEVLVHVKNLEKNKSNDAAVLEILHVLDKEFVPTE
MDSKEVLVHVKNLEKNKSNDAAVLEILHVLDKEFVPTE
KLLRETKVGVEVNKFKKSTNVEISKLVKKMISSWKD </pre>
KLLRETKVGVEVNKFKKSTNVEISKLVKKMISSWKD </pre>


== <br>'''2. "Standard" format.'''  ==


'''2. "Standard" format.'''
Each line contains name of one residue in 3-letter code and, optionally, the residue ID.  
 
Each line contains name of one residue in 3-lettr code and, optionally, the residue ID.
 
(only residue ID of the first residue is used to start numbering of the sequence positions).  


(Only residue ID of the first residue is used to start [[FMCGUI objects#Protein_sequence|numbering of sequence positions]].


<br>


''Example 2.1'' (position ID is not specified):
''Example 2.1.'' (position ID is not specified):  
<pre>GLN  
<pre>GLN  
GLY  
GLY  
Line 33: Line 34:
GLU  
GLU  
GLY  
GLY  
.... </pre>
.... </pre>  
GLN GLY HIS MET PRO GLY ILE ILE TYR GLU GLY LYS GLY THR ASN MET GLU ....
''Example 2.2.'' (with specified all position ID):  
 
<pre>GLN -3
Example 2.2 (with specified all position ID):  
GLY -2  
 
HIS -1  
GLN -3 GLY -2 HIS -1 MET 0 PRO 1 GLY 2 ILE 3 ILE 4 TYR 5 .....  
MET   0  
 
PRO   1  
Example 2.3 (with specified first position ID):  
GLY   2  
 
ILE   3  
GLN -3 GLY HIS MET PRO GLY ILE ILE TYR .....
ILE   4  
TYR   5  
..... </pre>
''Example 2.3.'' (with specified first position ID):  
<pre>GLN -3
GLY
HIS
MET
PRO
GLY
ILE
.....</pre>

Latest revision as of 23:34, 5 January 2010

1. Fasta format.

The first line should start with '>' symbol.

Next one or more lines contain sequence in 1-letter code.


Example 1.1:
 

>
MDSKEVLVHVKNLEKNKSNDAAVLEILHVLDKEFVPTE
KLLRETKVGVEVNKFKKSTNVEISKLVKKMISSWKD


2. "Standard" format.

Each line contains name of one residue in 3-letter code and, optionally, the residue ID.

(Only residue ID of the first residue is used to start numbering of sequence positions.


Example 2.1. (position ID is not specified): 

GLN 
GLY 
HIS 
MET 
PRO 
GLY 
ILE 
ILE 
TYR 
GLU 
GLY 
....

Example 2.2. (with specified all position ID): 

GLN  -3
GLY  -2 
HIS  -1 
MET   0 
PRO   1 
GLY   2 
ILE   3 
ILE   4 
TYR   5 
.....

Example 2.3. (with specified first position ID): 

GLN  -3
GLY  
HIS
MET
PRO
GLY
ILE
.....
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