Brand  (β version)

PDB ID: 5VZ6

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Ligands
Code Name Style Show Link
9TV 3-(pyrimidin-2-yl)-N-[3-(5,6,7,8-tetrahydronaphthalen-2-yl)-1h-pyrazol-5-yl]propanamide PoSSuM
Non-standard Residues
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Structure summary

Code : 5VZ6   PDBj   RCSB PDB   PDBe
Header : TRANSFERASE/INHIBITOR
Title : HIV Reverse Transcriptase complexed with (E)-3-(pyrimidin-2-yl)-N-(5-(5,6,7,8-tetrahydronaphthalen-2-yl)-1H-pyrazol-3-yl)acrylamide
Release Data : 2018-05-30
Compound :
mol_id molecule chains synonym
1 HIV Reverse Transcriptase A p66 RT, Exoribonuclease H
ec: 2.7.7.49,2.7.7.7,3.1.26.13,3.1.13.2
fragment: UNP residues 585-1149
mol_id molecule chains synonym
2 HIV Reverse Transcriptase B p51 RT
ec: 2.7.7.49,2.7.7.7,3.1.26.13,3.1.13.2
fragment: UNP residues 585-1027
Source :
mol_id organism_scientific organism_common expression_system
1 Human immunodeficiency virus type 1  (taxid:11676) HIV-1 Escherichia coli  (taxid:562)
gene: gag-pol
mol_id organism_scientific organism_common expression_system
2 Human immunodeficiency virus type 1  (taxid:11676) HIV-1 Escherichia coli  (taxid:562)
gene: gag-pol
Authors : Yan, Y., Su, H.P.
Keywords : HIV, RT, Reverse Transcriptase, TRANSFERASE-INHIBITOR complex
Exp. method : X-RAY DIFFRACTION ( 2.60 Å )
Citation :

HIV Reverse Transcriptase complexed with inhibitor

Yan, Y.,Su, H.P.
To Be Published 

Reaction

Chain : 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.