Structure based on 1vq2

Ideal structure
Name: 3,4-dihydro-2'-deoxyuridine-5'-monophosphate
Formula: C9 H15 N2 O8 P
Weight: 310.198
SMILES: "O[CH]1C[CH](O[CH]1CO[P](O)(O)=O)N2C=C[CH](O)NC2=O"
Spacial conformation based on PDB 1vq2.
Also present on 2hvw, 7uxd
RESIDUE   DDN     35
CONECT      OP3    1 P   
CONECT      P      4 OP3  OP1  OP2  O5' 
CONECT      OP1    2 P    H1P 
CONECT      OP2    2 P    H2P 
CONECT      O5'    2 P    C5' 
CONECT      C5'    4 O5'  C4'  H5'  H5''
CONECT      C4'    4 C5'  O4'  C3'  H4' 
CONECT      O4'    2 C4'  C1' 
CONECT      C3'    4 C4'  O3'  C2'  H3' 
CONECT      O3'    2 C3'  H1  
CONECT      C2'    4 C3'  C1'  H2'  H2''
CONECT      C1'    4 O4'  C2'  N1   H1' 
CONECT      N1     3 C1'  C2   C6  
CONECT      C2     3 N1   O2   N3  
CONECT      O2     1 C2  
CONECT      N3     3 C2   C4   HN3 
CONECT      C4     4 N3   O4   C5   H4  
CONECT      O4     2 C4   HO4 
CONECT      C5     3 C4   C6   H5  
CONECT      C6     3 N1   C5   H6  
CONECT      H1P    1 OP1 
CONECT      H2P    1 OP2 
CONECT      H5'    1 C5' 
CONECT      H5''   1 C5' 
CONECT      H4'    1 C4' 
CONECT      H3'    1 C3' 
CONECT      H1     1 O3' 
CONECT      H2'    1 C2' 
CONECT      H2''   1 C2' 
CONECT      H1'    1 C1' 
CONECT      HN3    1 N3  
CONECT      H4     1 C4  
CONECT      HO4    1 O4  
CONECT      H5     1 C5  
CONECT      H6     1 C6  
END   
HET    DDN             35
HETSYN     DDN ((2R,3S,5R)-3-HYDROXY-5-(4-HYDROXY-2-OXO-3,4-DIHYDROPYR
HETSYN   2 DDN IMIDIN-1(2H)-YL)-TETRAHYDROFURAN-2-YL)METHYL DIHYDROGEN
HETSYN   3 DDN  PHOSPHATE
HETNAM     DDN 3,4-DIHYDRO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE
FORMUL      DDN    C9 H15 N2 O8 P1

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