Structure based on 1nah

Ideal structure
Name: uridine-5'-diphosphate
Formula: C9 H14 N2 O12 P2
Weight: 404.161
SMILES: "O[CH]1[CH](O)[CH](O[CH]1CO[P](O)(=O)O[P](O)(O)=O)N2C=CC(=O)NC2=O"
Spacial conformation based on PDB 1nah.
Also present in other 350 PDB entries.
RESIDUE   UDP     39
CONECT      N1     3 C2   C6   C1' 
CONECT      C2     3 N1   N3   O2  
CONECT      N3     3 C2   C4   HN3 
CONECT      C4     3 N3   C5   O4  
CONECT      C5     3 C4   C6   H5  
CONECT      C6     3 N1   C5   H6  
CONECT      O2     1 C2  
CONECT      O4     1 C4  
CONECT      C1'    4 N1   C2'  O4'  H1' 
CONECT      C2'    4 C1'  O2'  C3'  H2' 
CONECT      O2'    2 C2'  HO2'
CONECT      C3'    4 C2'  C4'  O3'  H3' 
CONECT      C4'    4 C3'  O4'  C5'  H4' 
CONECT      O4'    2 C1'  C4' 
CONECT      O3'    2 C3'  HO3'
CONECT      C5'    4 C4'  O5'  H5'1 H5'2
CONECT      O5'    2 C5'  PA  
CONECT      PA     4 O5'  O1A  O2A  O3A 
CONECT      O1A    1 PA  
CONECT      O2A    2 PA   HOA2
CONECT      O3A    2 PA   PB  
CONECT      PB     4 O3A  O1B  O2B  O3B 
CONECT      O1B    1 PB  
CONECT      O2B    2 PB   HOB2
CONECT      O3B    2 PB   HOB3
CONECT      HN3    1 N3  
CONECT      H5     1 C5  
CONECT      H6     1 C6  
CONECT      H1'    1 C1' 
CONECT      H2'    1 C2' 
CONECT      HO2'   1 O2' 
CONECT      H3'    1 C3' 
CONECT      H4'    1 C4' 
CONECT      HO3'   1 O3' 
CONECT      H5'1   1 C5' 
CONECT      H5'2   1 C5' 
CONECT      HOA2   1 O2A 
CONECT      HOB2   1 O2B 
CONECT      HOB3   1 O3B 
END   
HET    UDP             39
HETNAM     UDP URIDINE-5'-DIPHOSPHATE
FORMUL      UDP    C9 H14 N2 O12 P2

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OCA© by Jaime Prilusky, 1996-2004,2006,2010,2014
Bioinformatics Unit
Weizmann Institute of Science