Structure based on 1dd7

Ideal structure
Name: methyl (3s)-3-{2-[(1,3-benzodioxol-5-ylmethyl)amino]-2-oxoethyl}-4-[2-(1h-imidazol-1-yl)pyrimidin-4-yl]piperazine-1-carboxylate
Formula: C23 H25 N7 O5
Weight: 479.489
SMILES: "COC(=O)N1CCN([CH](C1)CC(=O)NCc2ccc3OCOc3c2)c4ccnc(n4)n5ccnc5"
Spacial conformation based on PDB 1dd7
RESIDUE   1PM     60
CONECT      N3     3 C4   C2   C11 
CONECT      C4     3 N3   C5   H4  
CONECT      C5     3 C4   NFE  H5  
CONECT      NFE    2 C5   C2  
CONECT      C2     3 N3   NFE  H2  
CONECT      C11    3 N3   N12  N16 
CONECT      N12    2 C11  C13 
CONECT      C13    3 N12  C14  N21 
CONECT      C14    3 C13  C15  H14 
CONECT      C15    3 C14  N16  H15 
CONECT      N16    2 C11  C15 
CONECT      N21    3 C13  C22  C26 
CONECT      C22    4 N21  C23  H22  H221
CONECT      C23    4 C22  N24  H23  H231
CONECT      N24    3 C23  C25  C27 
CONECT      C25    4 N24  C26  H25  H24 
CONECT      C26    4 N21  C25  C31  H251
CONECT      C27    3 N24  O28  O29 
CONECT      O28    1 C27 
CONECT      O29    2 C27  C30 
CONECT      C30    4 O29  H301 H302 H303
CONECT      C31    4 C26  C32  H311 H312
CONECT      C32    3 C31  O33  N34 
CONECT      O33    1 C32 
CONECT      N34    3 C32  C36  H35 
CONECT      C36    4 N34  C41  H361 H362
CONECT      C41    3 C36  C42  C46 
CONECT      C42    3 C41  C43  H42 
CONECT      C43    3 C42  C44  H43 
CONECT      C44    3 C43  C45  O47 
CONECT      C45    3 C44  C46  O49 
CONECT      C46    3 C41  C45  H46 
CONECT      O47    2 C44  C48 
CONECT      C48    4 O47  O49  H481 H482
CONECT      O49    2 C45  C48 
CONECT      H4     1 C4  
CONECT      H5     1 C5  
CONECT      H2     1 C2  
CONECT      H14    1 C14 
CONECT      H15    1 C15 
CONECT      H22    1 C22 
CONECT      H23    1 C23 
CONECT      H25    1 C25 
CONECT      H301   1 C30 
CONECT      H302   1 C30 
CONECT      H303   1 C30 
CONECT      H311   1 C31 
CONECT      H312   1 C31 
CONECT      H35    1 N34 
CONECT      H361   1 C36 
CONECT      H362   1 C36 
CONECT      H42    1 C42 
CONECT      H43    1 C43 
CONECT      H46    1 C46 
CONECT      H481   1 C48 
CONECT      H482   1 C48 
CONECT      H221   1 C22 
CONECT      H231   1 C23 
CONECT      H24    1 C25 
CONECT      H251   1 C26 
END   
HET    1PM             60
HETNAM     1PM methyl (3S)-3-{2-[(1,3-benzodioxol-5-ylmethyl)amino]-2-
HETNAM   2 1PM oxoethyl}-4-[2-(1H-imidazol-1-yl)pyrimidin-4-yl]piperaz
HETNAM   3 1PM ine-1-carboxylate
FORMUL      1PM    C23 H25 N7 O5

This OCA MONOMER page
uses Jmol, developed by the Jmol Development Team (color reference)
OCA© by Jaime Prilusky, 1996-2004,2006,2010,2014
Bioinformatics Unit
Weizmann Institute of Science