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Note: As the images production is automatic, the focus on the PTM site could not be the most optimized.
In these cases it is recommended to use the PyMOL script to visualize the PTM site in 3D.
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MNEVSVIKEGWLHKRGEYIKTWRPRYFLLKSDGSFIGYKERPEAPDQTLPPLNNFSVAECQLMKTERPRPNTFVIRCLQWTTVIERTFHVDSPDEREEWMRAIQMVANSLKQRAPGEDPMDYKCGSPSDSSTTEEMEVAVSKARAKVTMNDFDYLKLLGKGTFGKVILVREKATGRYYAMKILRKEVIIAKDEVAHTVTESRVLQNTRHPFLTALKYAFQTHDRLCFVMEYANGGELFFHLSRERVFTEERARFYGAEIVSALEYLHSRDVVYRDIKLENLMLDKDGHIKITDFGLCKEGISDGATMKTFCGTPEYLAPEVLEDNDYGRAVDWWGLGVVMYEMMCGRLPFYNQDHERLFELILMEEIRFPRTLSPEAKSLLAGLLKKDPKQRLGGGPSDAKEVMEHRFFLSINWQDVVQKKLLPPFKPQVTSEVDTRYFDDEFTAQSITITPPDRYDSLGLLELDQRTHFPQFSYSASIRE
******************************************************************************************************************************************************************* ********************************************************************************************************************************************* **********************.******
-------------------------------------------------------------------------------------------------------------------------------------------------KVTMNDFDYLKLLGKGTFGKVILVREKATGRYYAMKILRKEVIIAKDEVAHTVTESRVLQNTRHPFLTALKYAFQTHDRLCFVMEYANGGELFFHLSRERVFTEERARFYGAEIVSALEYLHSRDVVYRDIKLENLMLDKDGHIKITDFGLCKEGISDGATMKXFCGTPEYLAPEVLEDNDYGRAVDWWGLGVVMYEMMCGRLPFYNQDHERLFELILMEEIRFPRTLSPEAKSLLAGLLKKDPKQRLGGGPSDAKEVMEHRFFLSINWQDVVQKKLLPPFKPQVTSEVDTRYFDDEFTAQSITIXPPDRYDSLGLLELDQRTHFPQFDYSASIR-
___________________________________________________________________________________________________________________________________________________________________H_____________________________________________________________________________________________________________________________________________H__MMMMMMMMMMMM________S______
CCCGGGEEEEEEEEECSSEEEEEEEETTTCCEEEEEEEEHHHHHHTTCHHHHHHHHHHHHHCCCTTBCCEEEEEECSSEEEEEEECCTTEEHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHHHTTCBCCCCCGGGEEECTTSCEEECCCTTCBCSCCTTCCBCCCEECGGGCCGGGGSSSCBCTTHHHHHHHHHHHHHHHSSCSSCCSSHHHHHHHHHHCCCCCCTTSCHHHHHHHHHHTCSSTTSSTTCSTTTHHHHHTSGGGTTCCHHHHHTTCSCCSCCCCCSSSSCCTTSCHHHHTSCCCCCCC CCCCCSSCCEETTTC
ZZfklpccfbdfbdcfklccdddddfklopacddddddfklmmmnopmmmmmmmmmmmmmgccfkbccdfbdcddfkbccddddddfkbpfklmmmmnopacfklmmmmmmmmmmmmmmmmmnopafklacfklpccdfkopacdehjllgcehiaehiacfbdcdjfklpcfklmpghjddfklmmmmmmmmmmmmmnopafbdcfblklmmmmmmmpccdddfklcfklmmmmmmmmpmblklpghiamnlmmmmmmpmklmmpcfklmmnopaccfbdcfbfblmlcklpcfklmmpccddddZZ ZZbcehkbccfklZZ
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If you want to use this structure as a template for modelisation with Modeller, you can use the following sequence to build the alignment file "*.ali". To avoid the classical Modeller error : 'Number of residues in the alignment and pdb files are different'(see FAQ n°17), the missing residues, non-classical amino-acids, and sequence gaps have been replaced by a "X" symbol.
1) align this sequence with your sequence to modelised; 2) replace the "X" by "-" in the obtained alignement, then build your "*.ali" file; 3) use Modeller to make your models; 4) And finally use the following information found in the PDB to add this PTM in your models (see FAQ n°8 & 9 and this archive of Modeller usage).
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