Citations in PubMed

Primary Citation PubMed: 15115397 Citations in PubMed

PDB ID Mentions in PubMed Central Article count: 3

Citations in PubMed

This linkout lists citations, indexed by PubMed, to the Primary Citation for this PDB ID.

PDB ID Mentions in PubMed Central

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.

  • 3 per page
  • 5 per page
  • 10 per page
  • view all
  • Publication Year
  • Ascending
  • Descending

Crystal engineering of HIV-1 reverse transcriptase for structure-based drug design.

(2008) Nucleic Acids Res 36

PubMed: 18676450 | PubMedCentral: PMC2528191 | DOI: 10.1093/nar/gkn464

( B ) Typical 1B1-RT/NNRTI residues involved in crystal packing (pdb code: 1S9E).

Publication Year: 2008


Enhanced Monte Carlo Sampling through Replica Exchange with Solute Tempering.

(2014) J Chem Theory Comput 10

PubMed: 24803853 | PubMedCentral: PMC3985685 | DOI: 10.1021/ct400989x

21 , 22 , 24 , 26 Briefly, the initial coordinates of the complexes were identical to those used in Bollini et al., 26 being constructed from the 1S9E PDB file 27 using the MCPRO ( 17 ) and BOMB ( 1 )... software.

Publication Year: 2014


PubMed ID is not available.

Published in 2015

PubMedCentral: PMC4452869

Additional time-dependent molecular dynamics simulations of the isolated fingers/palm domains starting from a structure that includes palm loop residues 219–230 (1S9E, green), the p51∆... L monomer in which palm loop residues from the 1DLO p66 subunit have been added back (4KSE, red), or the p51∆PL monomer taken to include the first 236 residues (corresponding to residues 1–249, since the construct is missing residues 219–230) (4KSE, black).

( B ) Ribbon diagram of the RT heterodimer structure (pdb: 1S9E, Das et al., 2004 ).

Das K , Clark AD , Lewi PJ , Heeres J , De Jonge MR , Koymans LM , Vinkers HM , Daeyaert F , Ludovici DW , Kukla MJ , De Corte B , Kavash RW , Ho CY , Ye H , Lichtenstein MA , Andries K , Pauwels R , Boyer PL , Clark P , Hughes SH , Janssen PA , Arnold E , 2004 , Crystal structure of HIV-1 reverse transcriptase (RT) in complex with Janssen-R129385 , http://www.rcsb.org/pdb/explore/explore.do?structureId=1S9E , Publicly available at RCSB Protein Data Bank (1S9E).

Analogous simulations starting with the monomer structure (pdb: 4KSE) or with the p51 subunit of an RT-inhibitor complex containing the missing loop residues (pdb: 1S9E) produced qualitatively similar results, with the most significant variation related to the time at which the transition to the more extended conformation occurs ( Figure 3—figure supplement 1 ).

Similar calculations were also performed starting with a p51 subunit of a structure that included the palm loop residues, pdb: 1S9E ( Das et al., 2004 ), and starting with the monomer, pdb: 4KSE ( Zheng et al., 2014 ).

Publication Year: 2015