Structure based on 4dl2

Ideal structure
Name: 2'-deoxy-5'-o-[(r)-hydroxy{[(r)-hydroxy(phosphonooxy)phosphoryl]amino}phosphoryl]cytidine
Formula: C9 H17 N4 O12 P3
Weight: 466.172
SMILES: "NC1=NC(=O)N(C=C1)[CH]2C[CH](O)[CH](CO[P](O)(=O)N[P](O)(=O)O[P](O)(O)=O)O2"
Spacial conformation based on PDB 4dl2.
Also present in other 54 PDB entries.
RESIDUE   0KX     45
CONECT      PG     4 O1G  O2G  O3G  O3B 
CONECT      O1G    2 PG   H1  
CONECT      O2G    1 PG  
CONECT      O3G    2 PG   H2  
CONECT      PB     4 O1B  O2B  O3B  N3A 
CONECT      O1B    2 PB   H3  
CONECT      O2B    1 PB  
CONECT      O3B    2 PG   PB  
CONECT      PA     4 O1A  O2A  N3A  O5' 
CONECT      O1A    1 PA  
CONECT      O2A    2 PA   H4  
CONECT      N3A    3 PB   PA   H5  
CONECT      O5'    2 PA   C5' 
CONECT      C5'    4 O5'  C4'  H6   H7  
CONECT      C4'    4 C5'  O4'  C3'  H8  
CONECT      O4'    2 C4'  C1' 
CONECT      C3'    4 C4'  O3'  C2'  H9  
CONECT      O3'    2 C3'  H10 
CONECT      C2'    4 C3'  C1'  H11  H12 
CONECT      C1'    4 O4'  C2'  N1   H13 
CONECT      N1     3 C1'  C2   C6  
CONECT      C2     3 N1   N3   O2  
CONECT      N3     2 C2   C4  
CONECT      C4     3 N3   C5   N4  
CONECT      C5     3 C4   C6   H14 
CONECT      C6     3 N1   C5   H15 
CONECT      O2     1 C2  
CONECT      N4     3 C4   H16  H17 
CONECT      H1     1 O1G 
CONECT      H2     1 O3G 
CONECT      H3     1 O1B 
CONECT      H4     1 O2A 
CONECT      H5     1 N3A 
CONECT      H6     1 C5' 
CONECT      H7     1 C5' 
CONECT      H8     1 C4' 
CONECT      H9     1 C3' 
CONECT      H10    1 O3' 
CONECT      H11    1 C2' 
CONECT      H12    1 C2' 
CONECT      H13    1 C1' 
CONECT      H14    1 C5  
CONECT      H15    1 C6  
CONECT      H16    1 N4  
CONECT      H17    1 N4  
HET    0KX             45
HETNAM     0KX 2'-deoxy-5'-O-[(R)-hydroxy{[(R)-hydroxy(phosphonooxy)ph
HETNAM   2 0KX osphoryl]amino}phosphoryl]cytidine
FORMUL      0KX    C9 H17 N4 O12 P3

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