PDBsum entry 3lzs

Hydrolase

PDB id: 3lzs

Contents

Protein chains

99 a.a. *

Ligands

017

ACT ×3

Waters ×69

* Residue conservation analysis

PDB id:

3lzs

Name:

Hydrolase

Title:

Crystal structure of HIV-1 crf01_ae protease in complex with darunavir

Structure:

HIV-1 protease. Chain: a, b. Engineered: yes. Mutation: yes

Source:

Human immunodeficiency virus 1. Organism_taxid: 11676. Strain: nh1. Gene: gag-pol. Expressed in: escherichia coli. Expression_system_taxid: 562.

Resolution:

1.95Å R-factor: 0.203 R-free: 0.259

Authors:

C.A.Schiffer,R.M.Bandaranayake

Key ref:

R.M.Bandaranayake et al. (2010). The effect of clade-specific sequence polymorphisms on HIV-1 protease activity and inhibitor resistance pathways. J Virol, 84, 9995. PubMed id: 20660190

Date:

01-Mar-10 Release date: 11-Aug-10

Protein chains

P24740  (POL_HV1U4) -  Gag-Pol polyprotein from Human immunodeficiency virus type 1 group M subtype A (isolate U455)

Seq: 1428 a.a.

Struc: 99 a.a.*

* PDB and UniProt seqs differ at 4 residue positions (black crosses)

Enzyme reactions

• Enzyme class 1: E.C.2.7.7.- - ?????
• Enzyme class 2: E.C.2.7.7.49 - RNA-directed Dna polymerase.
• Reaction: DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate
• Enzyme class 3: E.C.2.7.7.7 - DNA-directed Dna polymerase.
• Reaction: DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate
• Enzyme class 4: E.C.3.1.-.-
• Enzyme class 5: E.C.3.1.13.2 - exoribonuclease H.
• Reaction: Exonucleolytic cleavage to 5'-phosphomonoester oligonucleotides in both 5'- to 3'- and 3'- to 5'-directions.
• Enzyme class 6: E.C.3.1.26.13 - retroviral ribonuclease H.
• Enzyme class 7: E.C.3.4.23.16 - HIV-1 retropepsin.
• Reaction: Specific for a P1 residue that is hydrophobic, and P1' variable, but often Pro.

Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.

Molecule diagrams generated from .mol files obtained from the KEGG ftp site

reference

J Virol 84:9995 (2010)

PubMed id: 20660190

The effect of clade-specific sequence polymorphisms on HIV-1 protease activity and inhibitor resistance pathways.

R.M.Bandaranayake, M.Kolli, N.M.King, E.A.Nalivaika, A.Heroux, J.Kakizawa, W.Sugiura, C.A.Schiffer.

ABSTRACT

No abstract given.