Brand  (β version)

PDB ID: 1ODW

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Ligands
Code Name Style Show Link
0E8 Di-tert-butyl {iminobis[(2s,3s)-3-hydroxy-1-phenylbutane-4,2-diyl]}biscarbamate PoSSuM
Non-standard Residues
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Glycosylation
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Structure summary

Code : 1ODW   PDBj   RCSB PDB   PDBe
Header : Hydrolase/Hydrolase Inhibitor
Title : Native HIV-1 Proteinase
Release Data : 1997-04-01
Compound :
mol_id molecule chains synonym
1 HIV-1 PROTEASE A,B RETROPEPSIN
ec: 3.4.23.16
Source :
mol_id organism_scientific organism_common expression_system
1 Human immunodeficiency virus 1  (taxid:11676) HIV-1 Escherichia coli  (taxid:562)
gene: gag-pol
expression_system_plasmid: PMAL-C2
Authors : Thanki, N., Kervinen, J., Wlodawer, A.
Keywords : PROTEINASE, RETROPEPSIN, RETROVIRUS, HIV, Hydrolase-Hydrolase Inhibitor complex
Exp. method : X-RAY DIFFRACTION ( 2.1 Å )
Citation :

Structural Analysis of the Native and Drug-Resistant HIV-1 Proteinases Complexed with an Aminodiol Inhibitor

Kervinen, J.,Thanki, N.,Zdanov, A.  et al.
(1996)  Protein Pept.Lett.  3 : 399

PubMed: -1

Reaction

Chain : A, B
UniProt : P04585 (POL_HV1H2)
Reaction: EC: Evidence:
Physiological Direction:
Specific for a P1 residue that is hydrophobic, and P1' variable, but often Pro. 3.4.23.16 PROSITE-ProRule:PRU00275, PubMed:32053707, PubMed:33542150
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Endohydrolysis of RNA in RNA/DNA hybrids. Three different cleavage modes: 1. sequence-specific internal cleavage of RNA. Human immunodeficiency virus type 1 and Moloney murine leukemia virus enzymes prefer to cleave the RNA strand one nucleotide away from the RNA-DNA junction. 2. RNA 5'-end directed cleavage 13-19 nucleotides from the RNA end. 3. DNA 3'-end directed cleavage 15-20 nucleotides away from the primer terminus. 3.1.26.13 UniProtKB:P03366
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3'-end directed exonucleolytic cleavage of viral RNA-DNA hybrid. 3.1.13.2 -
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DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate 2.7.7.49 PROSITE-ProRule:PRU00405
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DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate 2.7.7.7 PROSITE-ProRule:PRU00405
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Cofactor: Evidence: Note:
Mg(2+) ECO:0000250
Binds 2 magnesium ions for reverse transcriptase polymerase activity.
Mg(2+) ECO:0000250
Binds 2 magnesium ions for ribonuclease H (RNase H) activity. Substrate-binding is a precondition for magnesium binding.
Mg(2+) ECO:0000250
Magnesium ions are required for integrase activity. Binds at least 1, maybe 2 magnesium ions.