PDBsum entry 3klh

Transferase/DNA

PDB id: 3klh

Contents

Protein chains

558 a.a. *

428 a.a. *

211 a.a. *

225 a.a. *

DNA/RNA

Metals

_MG

Waters ×138

* Residue conservation analysis

PDB id:

3klh

Name:

Transferase/DNA

Title:

Crystal structure of azt-resistant HIV-1 reverse transcriptase crosslinked to post-translocation aztmp-terminated DNA (complex p)

Structure:

Reverse transcriptase/ribonuclease h. Chain: a. Synonym: p66 rt. Engineered: yes. Mutation: yes. P51 rt. Chain: b. Engineered: yes. Mutation: yes.

Source:

Human immunodeficiency virus type 1. HIV-1. Organism_taxid: 11678. Strain: bh10. Gene: gag-pol. Expressed in: escherichia coli. Expression_system_taxid: 562. Mus musculus. Mouse.

Resolution:

2.90Å R-factor: 0.260 R-free: 0.294

Authors:

X.Tu,S.G.Sarafianos,E.Arnold

Key ref:

X.Tu et al. (2010). Structural basis of HIV-1 resistance to AZT by excision. Nat Struct Biol, 17, 1202-1209. PubMed id: 20852643

Date:

07-Nov-09 Release date: 22-Sep-10

Protein chain

P03366  (POL_HV1B1) -  Gag-Pol polyprotein from Human immunodeficiency virus type 1 group M subtype B (isolate BH10)

Seq: 1447 a.a.

Struc: 558 a.a.*

Protein chain

P03366  (POL_HV1B1) -  Gag-Pol polyprotein from Human immunodeficiency virus type 1 group M subtype B (isolate BH10)

Seq: 1447 a.a.

Struc: 428 a.a.*

Protein chain

No UniProt id for this chain

Struc: 211 a.a.

Protein chain

No UniProt id for this chain

Struc: 225 a.a.

* PDB and UniProt seqs differ at 8 residue positions (black crosses)

DNA/RNA chains

G-C-T-A-G-G-C-G-C-C-C-G-A-A-C-A-G-G-G-A-C-T-G-T 24 bases

A-C-A-G-T-C-C-C-T-G-T-T-C-G-G-MRG-C-G-C-C-ATM 21 bases

Enzyme reactions

• Enzyme class 2: Chains A, B: E.C.2.7.7.- - ?????
• Enzyme class 3: Chains A, B: E.C.2.7.7.49 - RNA-directed Dna polymerase.
• Reaction: DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate
• Enzyme class 4: Chains A, B: E.C.2.7.7.7 - DNA-directed Dna polymerase.
• Reaction: DNA(n) + a 2'-deoxyribonucleoside 5'-triphosphate = DNA(n+1) + diphosphate
• Enzyme class 5: Chains A, B: E.C.3.1.-.-
• Enzyme class 6: Chains A, B: 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 7: Chains A, B: E.C.3.1.26.13 - retroviral ribonuclease H.
• Enzyme class 8: Chains A, B: 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

Nat Struct Biol 17:1202-1209 (2010)

PubMed id: 20852643

Structural basis of HIV-1 resistance to AZT by excision.

X.Tu, K.Das, Q.Han, J.D.Bauman, A.D.Clark, X.Hou, Y.V.Frenkel, B.L.Gaffney, R.A.Jones, P.L.Boyer, S.H.Hughes, S.G.Sarafianos, E.Arnold.

ABSTRACT

No abstract given.