Sequence     &     Structural     Information 
	

		
			

				PTM
			

		
		
			

				PTM
				Methylation
			

		

		
			

				Sequence Information
			


		
		
			

				Uniprot AC
				P62805
			

			

				Organism
				HUMAN (Human)
			

			

				Modified Amino Acid
				K(Lys) 21
			

			

				Annotation dbPTM details
				N6,N6,N6-trimethyllysine; alternate.
N6,N6-dimethyllysine; alternate.
N6-methyllysine; alternate.
N6,N6,N6-trimethyllysine
N6,N6-dimethyllysine
N6-acetyllysine
N6-methyllysine
N6-methylated lysine		
			

		

		
			

				Structure Information
			


		
		
			

				PDB ID Code
				3F9X
			

			

				Model
				-
			

			

				Chain
				H
			

			

				Position
				20
			

			

				SCOP Class
				None
			

			

				MODRES
				N-DIMETHYL-LYSINE                        
			

		

		
			

				Related PTM
			


		
		
			

				Found in same PDB Chain
				-
			

			

				Found in same Uniprot AC
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PDB ID Code
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Sequence position
  (aa_idpdb-chain)
Gallery (?)
Slide 1
Slide 2
Example Frame 



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.
Alignment
(?) 

	           Numerotation

	(?)       Uniprot Sequence
	(?)                Clustal
	(?)           PDB Sequence
	(?)        PDB Information
	(?)          DSSP Sequence
	(?) Protein Block Sequence
	
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MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKVFLENVIRDAVTYTEHAKRKTVTAMDVVYALKRQGRTLYGFGG
               ***** ****                                                                              
---------------AKRHRXVLRD------------------------------------------------------------------------------
               M____H___M                                                                              
                CCCCEECC                                                                               
                ZZddddZZ

Scripts     (PyMol,     Modeller,     ...)

PyMol 
	Download
Modeller 
	
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.
XKRHRXVLRX 
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).
			

			

			
				

MODRES 3F9X MLY H   20  LYS  N-DIMETHYL-LYSINE                                  
SHEET    4   O 4 MLY H  20  VAL H  21  1  O  MLY H  20   N  TYR D 274           
LINK         C   ARG H  19                 N   MLY H  20     1555   1555  1.33  
LINK         C   MLY H  20                 N   VAL H  21     1555   1555  1.33  
SITE     5 AC4 19 ARG E  23  HIS H  18  MLY H  20                               
HETATM 5410  N   MLY H  20      -2.704  26.811 -55.298  1.00 14.56           N  
ANISOU 5410  N   MLY H  20     1620   1737   2177     33   -265     80       N  
HETATM 5411  CA  MLY H  20      -1.901  25.600 -55.518  1.00 15.18           C  
ANISOU 5411  CA  MLY H  20     1717   1944   2106    -91   -168     88       C  
HETATM 5412  CB  MLY H  20      -1.095  25.799 -56.813  1.00 15.43           C  
ANISOU 5412  CB  MLY H  20     1735   2107   2020     43   -164    -38       C  
HETATM 5413  CG  MLY H  20      -2.005  25.970 -58.042  1.00 18.94           C  
ANISOU 5413  CG  MLY H  20     2107   2860   2231   -291   -229   -126       C  
HETATM 5414  CD  MLY H  20      -1.306  26.285 -59.385  1.00 19.15           C  
ANISOU 5414  CD  MLY H  20     2425   2533   2317   -398   -255      0       C  
HETATM 5415  CE  MLY H  20      -2.290  26.794 -60.482  1.00 19.65           C  
ANISOU 5415  CE  MLY H  20     2859   2349   2259   -139    -84     58       C  
HETATM 5416  NZ  MLY H  20      -1.757  26.953 -61.896  1.00 20.19           N  
ANISOU 5416  NZ  MLY H  20     2703   2472   2497   -128    506    -23       N  
HETATM 5417  CH1 MLY H  20      -0.992  28.143 -62.446  1.00 15.41           C  
ANISOU 5417  CH1 MLY H  20     1705   1902   2249   -289   -673    213       C  
HETATM 5418  CH2 MLY H  20      -1.020  25.698 -62.178  1.00 22.29           C  
ANISOU 5418  CH2 MLY H  20     3136   2983   2350    188    771   -270       C  
HETATM 5419  C   MLY H  20      -1.048  25.434 -54.298  1.00 15.60           C  
ANISOU 5419  C   MLY H  20     1576   2012   2340    -80   -184    122       C  
HETATM 5420  O   MLY H  20      -0.544  26.435 -53.731  1.00 16.24           O  
ANISOU 5420  O   MLY H  20     1314   2041   2815    -53   -382     54       O