I get the error 'PROBLEM: The sequence presents a residue (0) not recognized' when running EOM.
All letters in the seq file are uppercase, i tried both with and without the first line in the fasta format and checked my sequence 100 times. Anyone who knows how to solve the problem? I am using MAC.
Cheers,
Julie
PROBLEM: The sequence presents a residue (0) not recognized
Re: PROBLEM: The sequence presents a residue (0) not recogni
Hi Julie,
can you please pm me your sequence file? Is the EOM run using any PDB files or just random structure?
can you please pm me your sequence file? Is the EOM run using any PDB files or just random structure?
Re: PROBLEM: The sequence presents a residue (0) not recogni
It is a 7 domain protein and i have used 7 different pdb structures. I had a hard time understanding which sequence the EOM actually need so i tried both with the sequence of the protein tested with SAXS and all the sequences of the pdb structures. I tried using the sequences in fasta format but naming the file seq.seq and also tried without the fasta headers.
Re: PROBLEM: The sequence presents a residue (0) not recogni
Hi Julie,
try removing all the non-alphabetical characters from the sequence files, you should only have something like this:
MLLAQKPFWQRHLAYPHINLDTVAHSLRLTGPLDTTLLLRALHLTVSEIDLFRARFSAQG
ELYWHPFSPPIDYQDLSIHLEAEPLAWRQIEQDLQRSSTLIDAPITSHQVYRLSHSEHLI
YTRAHHIVLDGYGMMLFEQRLSQHYQSLLSGQTPTAAFKPYQSYLEEEAAYLTSHRYWQD
KQFWQGYLREAPDLTLTSATYDPQLSHAVSLSYTLNSQLNHLLLKLANANQIGWPDALVA
LCALYLESAEPDAPWLWLPFMNRWGSVAANVPGLMVNSLPLLRLSAQQTSLGNYLKQSGQ
AIRSLYLHGRYRIEQIEQDQGLNAEQSYFMSPFINILPFESPHFADCQTELKVLASGSAE
GINFTFRGSPQHELCLDITADLASYPQSHWQSHCERFPRFFEQLLARFQQVEQDVARLLA
EPAALAATTSTRAIAS
Just plain text. Remove any spaces and "/" or "{" for example.
Let me know how it goes.
Cheers,
Haydyn
try removing all the non-alphabetical characters from the sequence files, you should only have something like this:
MLLAQKPFWQRHLAYPHINLDTVAHSLRLTGPLDTTLLLRALHLTVSEIDLFRARFSAQG
ELYWHPFSPPIDYQDLSIHLEAEPLAWRQIEQDLQRSSTLIDAPITSHQVYRLSHSEHLI
YTRAHHIVLDGYGMMLFEQRLSQHYQSLLSGQTPTAAFKPYQSYLEEEAAYLTSHRYWQD
KQFWQGYLREAPDLTLTSATYDPQLSHAVSLSYTLNSQLNHLLLKLANANQIGWPDALVA
LCALYLESAEPDAPWLWLPFMNRWGSVAANVPGLMVNSLPLLRLSAQQTSLGNYLKQSGQ
AIRSLYLHGRYRIEQIEQDQGLNAEQSYFMSPFINILPFESPHFADCQTELKVLASGSAE
GINFTFRGSPQHELCLDITADLASYPQSHWQSHCERFPRFFEQLLARFQQVEQDVARLLA
EPAALAATTSTRAIAS
Just plain text. Remove any spaces and "/" or "{" for example.
Let me know how it goes.
Cheers,
Haydyn
Re: PROBLEM: The sequence presents a residue (0) not recogni
I have tried that many times and it results in the same error. Can anything else give that error, when the sequence is fine?
Re: PROBLEM: The sequence presents a residue (0) not recogni
Hi Julie,
I just removed all the extra characters and EOM runs fine with the modified sequence file (EOM run without using any rigid bodies, just random coil from sequence).
In your case I assume you have corresponding rigid bodies. Do you have anything in the PDB files that is unusual?
Cheers,
Haydyn
I just removed all the extra characters and EOM runs fine with the modified sequence file (EOM run without using any rigid bodies, just random coil from sequence).
In your case I assume you have corresponding rigid bodies. Do you have anything in the PDB files that is unusual?
Cheers,
Haydyn