Dear sir/madam, I have a problem with modeller and probably you can help me. I want to do protein structure modelling. I have the sequence of a bacterium protein, and it's known that it has tree identical chains like this: MQMKKLFPIL IGLGLTGFSA MSQAENLLQV YQQARISNPD LRKSAADRDA AFEKINEARS PLLPQLGLGA DYTYTSGFRD YKDQNSNVTS GSLQLTQVLF DMSKWRALTL QEKQAGIQDV TYQTDQQTLI LNTATAYFKG LAAIDTLSYT EAQKQAIYRQ LDQTTQRFNV GLGAITDVQN ARSQYDAVLA NEVTARNDLD NAPQKLRQGT GNYYPELGSP NGKGFKTNKP QAVNALLKEA ESRNLSLLQA RLSQDLAREQ IPQAQDGHLP TLNLNASSGV SNNRYSGSKS ISQDADVGQN KIGLSFSLPL YQGGMVNSQV KQAQYNFVGA SEQLESAHRS VVQTVRSSFN NVNASISSIN AYKQAVVSAQ SSLDAMEAGY SVGTRTIVDV LDATTTLYNA KQQLSNARYN YLINELNIKS ALGTLNEQDL VALNNTLGKS IPTSPDSVAP ENPQQDASAD GYSNTAAAKP ASARTTQTSG SNPFRQ*
I don't really know what can I do to avoid the chains overlap. I have tried to copy the sequence three times but it doesn't work. This is what I did:
MQMKKLFPIL IGLGLTGFSA MSQAENLLQV YQQARISNPD LRKSAADRDA AFEKINEARS PLLPQLGLGA DYTYTSGFRD YKDQNSNVTS GSLQLTQVLF DMSKWRALTL QEKQAGIQDV TYQTDQQTLI LNTATAYFKG LAAIDTLSYT EAQKQAIYRQ LDQTTQRFNV GLGAITDVQN ARSQYDAVLA NEVTARNDLD NAPQKLRQGT GNYYPELGSP NGKGFKTNKP QAVNALLKEA ESRNLSLLQA RLSQDLAREQ IPQAQDGHLP TLNLNASSGV SNNRYSGSKS ISQDADVGQN KIGLSFSLPL YQGGMVNSQV KQAQYNFVGA SEQLESAHRS VVQTVRSSFN NVNASISSIN AYKQAVVSAQ SSLDAMEAGY SVGTRTIVDV LDATTTLYNA KQQLSNARYN YLINELNIKS ALGTLNEQDL VALNNTLGKS IPTSPDSVAP ENPQQDASAD GYSNTAAAKP ASARTTQTSG SNPFRQ MQMKKLFPIL IGLGLTGFSA MSQAENLLQV YQQARISNPD LRKSAADRDA AFEKINEARS PLLPQLGLGA DYTYTSGFRD YKDQNSNVTS GSLQLTQVLF DMSKWRALTL QEKQAGIQDV TYQTDQQTLI LNTATAYFKG LAAIDTLSYT EAQKQAIYRQ LDQTTQRFNV GLGAITDVQN ARSQYDAVLA NEVTARNDLD NAPQKLRQGT GNYYPELGSP NGKGFKTNKP QAVNALLKEA ESRNLSLLQA RLSQDLAREQ IPQAQDGHLP TLNLNASSGV SNNRYSGSKS ISQDADVGQN KIGLSFSLPL YQGGMVNSQV KQAQYNFVGA SEQLESAHRS VVQTVRSSFN NVNASISSIN AYKQAVVSAQ SSLDAMEAGY SVGTRTIVDV LDATTTLYNA KQQLSNARYN YLINELNIKS ALGTLNEQDL VALNNTLGKS IPTSPDSVAP ENPQQDASAD GYSNTAAAKP ASARTTQTSG SNPFRQ MQMKKLFPIL IGLGLTGFSA MSQAENLLQV YQQARISNPD LRKSAADRDA AFEKINEARS PLLPQLGLGA DYTYTSGFRD YKDQNSNVTS GSLQLTQVLF DMSKWRALTL QEKQAGIQDV TYQTDQQTLI LNTATAYFKG LAAIDTLSYT EAQKQAIYRQ LDQTTQRFNV GLGAITDVQN ARSQYDAVLA NEVTARNDLD NAPQKLRQGT GNYYPELGSP NGKGFKTNKP QAVNALLKEA ESRNLSLLQA RLSQDLAREQ IPQAQDGHLP TLNLNASSGV SNNRYSGSKS ISQDADVGQN KIGLSFSLPL YQGGMVNSQV KQAQYNFVGA SEQLESAHRS VVQTVRSSFN NVNASISSIN AYKQAVVSAQ SSLDAMEAGY SVGTRTIVDV LDATTTLYNA KQQLSNARYN YLINELNIKS ALGTLNEQDL VALNNTLGKS IPTSPDSVAP ENPQQDASAD GYSNTAAAKP ASARTTQTSG SNPFRQ*
Could you help me, please? I need to know how can I find a solution and I don't know the way to get it. When I copy the sequence three times, the program don't distinguish the three chains, and it overlap them. I'm waiting for your reply. Thank you very much.
Ester