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DB00495 : zidovudine

Approved drug zidovudine ... 2 targets DB00495

Generic name: zidovudine PDB Het Group: AZZ
 
5 structures in PDB
Brand name(s): apo-zidovudine, aztec, compound s, novo-azt, retrovir, zidovudine ep iii.
Formula: C10H13N5O4
IUPAC Formula: 1-[(2r,4s,5s)-4-Azido-5-(Hydroxymethyl)oxolan-2-Yl]-5-Methyl-1,2,3,4-Tetrahydropyrimidine-2,4-Dione
PDB name: 3'-Azido-3'-Deoxythymidine

2
There are 2 target proteins defined in DrugBank for this drug.
 1 
1 of these target proteins has one or more structures in the PDB.
 3 
There are 3 PDB structures containing the drug molecule bound to a protein that is not specified as a target.
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Target proteins

DrugBank drug Target 1:   UniProt id: Q5DNL9 (Q5DNL9_9HIV1)  -  Reverse transcriptase
UniProt id: Q5DNL9    560 a.a.  
 
There are no structures of the target protein in the PDB (click icon on left for list of closest matches)
DrugBank drug Target 2:   UniProt id: O14746 (TERT_HUMAN)  -  Telomerase reverse transcriptase
UniProt id: O14746    1131 a.a.  
4b18 B     16 a.a. 15   X-ray 2.52 Å
There are no PDB entries containing zidovudine bound to this target protein, although there is 1 entry of the target protein in the PDB (see above).

Key:    PfamA domain  PfamB domain  Secondary structure  Bound drug molecule

The black crosses on the secondary structure diagrams indicate where the PDB and UniProt sequences differ.

 

Other proteins with zidovudine bound in the PDB

There are 3 "non-target" proteins in the PDB containing the zidovudine molecule bound. That is, the UniProt code for the proteins is missing or does not match any of the drug targets listed above.

Protein 1:   UniProt id: P00489 ()  -  Glycogen phosphorylase, muscle form OS=Oryctolagus cuniculus GN=PYGM PE=1 SV=3
UniProt id: P00489    842 a.a.  
3bcr A   812 a.a. 811   X-ray 2.14 Å
The PDB contains 1 entry of zidovudine bound to this protein
Protein 2:   UniProt id: P07650 ()  -  Thymidine phosphorylase OS=Escherichia coli (strain K12) GN=deoA PE=1 SV=3
UniProt id: P07650    439 a.a.  
4lhm A   440 a.a. 439   X-ray 1.52 Å
The PDB contains 1 entry of zidovudine bound to this protein
Protein 3:   UniProt id: Q9XZT6 ()  -  Deoxynucleoside kinase OS=Drosophila melanogaster GN=dnk PE=1 SV=1
UniProt id: Q9XZT6    249 a.a.  
2jj8 A,B,C,D   184 a.a. 184   X-ray 2.80 Å
The PDB contains 1 entry of zidovudine bound to this protein

Key:    PfamA domain  Secondary structure  Bound drug molecule

The black crosses on the secondary structure diagrams indicate where the PDB and UniProt sequences differ.

 

Structure selection

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