Primary Citation PubMed: 22266819
Citations in PubMed
This linkout lists citations, indexed by PubMed, to the Primary Citation for this PDB ID.
Data mentions are occurrences of PDB IDs in the full text articles from the
PubMedCentral Open Access Subset
of currently about 1 million articles. For each article, the sentences containing the PDB ID are listed.
Article titles can be filtered by keywords and sorted by year.
Complexes of HIV-1 RT, NNRTI and RNA/DNA hybrid reveal a structure compatible with RNA degradation.
(2013) Nat Struct Mol Biol 20
PubMed: 23314251 | PubMedCentral: PMC3973182 | DOI: 10.1038/nsmb.2485
Structural comparison with the recently reported RT–DNA–NNRTI complex 29 (PDB: 3V81) turned out to be not as revealing.
( a ) Pairwise comparisons of RT in the 3V81 structure with RT complexed with Nevirapine (3QIP 14 ), an RT ternary complex (1RTD 26 ), and our WT22Efv (4B3O).
Perhaps due to the crosslinking between RT and DNA and the procedure of soaking NNRTI into a preformed RT–DNA co-crystal, the protein structure of 3V81 is more similar to that of the RT–DNA–dNTP ternary complex than to that in either the RT–NNRTI complex or our WT22Efv structure ( Fig. 3a ).
Publication Year: 2013
Structures of HIV-1 RT-RNA/DNA ternary complexes with dATP and nevirapine reveal conformational flexibility of RNA/DNA: insights into requirements for RNase H cleavage.
(2014) Nucleic Acids Res 42
PubMed: 24880687 | PubMedCentral: PMC4081091 | DOI: 10.1093/nar/gku487
The minor groove widths of two independent copies of DNA/DNA in RT-DNA/DNA-NVP (yellow and orange; PDB ID 3V81) and RT-DNA/DNA-AZTTP (blue and cyan; PDB ID 3V4I) structures by CURVES+ are plotted.
Atomic coordinates of an RT molecule in RT-DNA/DNA-AZTTP (PDB ID 3V4I) or RT-DNA/DNA-NVP (PDB ID 3V81) complexes ( 37 ) were used as starting models to locate the two copies of RT in RT-RNA/DNA-dATP or RT-RNA/DNA-NVP complexes, respectively, by molecular replacement.
In contrast, the conformation of DNA/DNA (Figure 3D ) is less perturbed upon binding of NVP when previously reported structures of RT-DNA/DNA-NVP (PDB ID 3V81) and RT-DNA/DNA-AZTTP (PDB ID 3V4I) obtained in an analogous crystal form were compared ( 37 ).
Publication Year: 2014
RCSB PDB (citation) is managed by two members of the Research Collaboratory for Structural Bioinformatics: Rutgers and UCSD/SDSC
RCSB PDB is a member of the
The RCSB PDB is funded by a grant (DBI-1338415) from the
National Science Foundation, the
National Institutes of Health, and the
US Department of Energy.