Structure based on 1wvg

Ideal structure
Name: cytidine-5'-diphospho-beta-d-xylose
Formula: C14 H23 N3 O15 P2
Weight: 535.291
SMILES: "NC1=NC(=O)N(C=C1)[CH]2O[CH](CO[P](O)(=O)O[P](O)(=O)O[CH]3OC[CH](O)[CH](O)[CH]3O)[CH](O)[CH]2O"
Spacial conformation based on PDB 1wvg
RESIDUE   CXY     57
CONECT      O1B    1 PB  
CONECT      PB     4 O1B  O2B  O1'  O3A 
CONECT      O2B    2 PB   H2B 
CONECT      O1'    2 PB   C1' 
CONECT      O3A    2 PB   PA  
CONECT      PA     4 O3A  O1A  O2A  O5D 
CONECT      O1A    2 PA   H1A 
CONECT      O2A    1 PA  
CONECT      O5D    2 PA   C5D 
CONECT      C5D    4 O5D  C4D  H5'1 H5'2
CONECT      C4D    4 C5D  O4D  C3D  H4D 
CONECT      O4D    2 C4D  C1D 
CONECT      C3D    4 C4D  O3D  C2D  H3D 
CONECT      O3D    2 C3D  H4  
CONECT      C2D    4 C3D  O2D  C1D  H2D 
CONECT      O2D    2 C2D  H7  
CONECT      C1D    4 O4D  C2D  N1   H1D 
CONECT      N1     3 C1D  C6   C2  
CONECT      C6     3 N1   C5   H6  
CONECT      C5     3 C6   C4   H5  
CONECT      C4     3 C5   N3   N4  
CONECT      N3     2 C4   C2  
CONECT      C2     3 N1   N3   O2  
CONECT      N4     3 C4   HN41 HN42
CONECT      O2     1 C2  
CONECT      C1'    4 O1'  C2'  O5'  H1' 
CONECT      C2'    4 C1'  C3'  O2'  H2' 
CONECT      C3'    4 C2'  C4'  O3'  H3' 
CONECT      C4'    4 C3'  C5'  O4'  H4' 
CONECT      C5'    4 C4'  O5'  H5D  H5B 
CONECT      O2'    2 C2'  H3  
CONECT      O3'    2 C3'  H2  
CONECT      O4'    2 C4'  H1  
CONECT      O5'    2 C1'  C5' 
CONECT      H2B    1 O2B 
CONECT      H1A    1 O1A 
CONECT      H5'1   1 C5D 
CONECT      H5'2   1 C5D 
CONECT      H4D    1 C4D 
CONECT      H3D    1 C3D 
CONECT      H4     1 O3D 
CONECT      H2D    1 C2D 
CONECT      H7     1 O2D 
CONECT      H1D    1 C1D 
CONECT      H6     1 C6  
CONECT      H5     1 C5  
CONECT      HN41   1 N4  
CONECT      HN42   1 N4  
CONECT      H1'    1 C1' 
CONECT      H2'    1 C2' 
CONECT      H3'    1 C3' 
CONECT      H4'    1 C4' 
CONECT      H5D    1 C5' 
CONECT      H5B    1 C5' 
CONECT      H3     1 O2' 
CONECT      H2     1 O3' 
CONECT      H1     1 O4' 
END   
HET    CXY             57
HETNAM     CXY CYTIDINE-5'-DIPHOSPHO-BETA-D-XYLOSE
FORMUL      CXY    C14 H23 N3 O15 P2

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