Primary Citation PubMed: 12167852
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In silico elucidation of the molecular mechanism defining the adverse effect of selective estrogen receptor modulators.
(2007) PLoS Comput Biol 3
PubMed: 18052534 | PubMedCentral: PMC2098847 | DOI: 10.1371/journal.pcbi.0030217
The PDB ids of SERCA proteins are 2agv, 1xp5, 1wpg, 1iwo, 2c88, and 2eat.
Publication Year: 2007
Access of extracellular cations to their binding sites in Na,K-ATPase: role of the second extracellular loop of the alpha subunit.
(2006) J Gen Physiol 127
PubMed: 16505152 | PubMedCentral: PMC2151497 | DOI: 10.1085/jgp.200509418
However, the 1SU4 (E1) and 1IWO (E2) structures of SERCA shows that in the E2 state, but not in E1, residues in this second loop are in close proximity to residues in the fourth extracellular loop lin... ing M7 and M8 ( Toyoshima and Nomura, 2002 ; Yudowski et al., 2003 ).
Publication Year: 2006
Lipid bilayer-mediated regulation of ion channel function by amphiphilic drugs.
(2008) J Gen Physiol 131
PubMed: 18411332 | PubMedCentral: PMC2346573 | DOI: 10.1085/jgp.200709948
Prepared with Pymol using PDB structures 1SU4 and 1IWO.
Publication Year: 2008
2-Color calcium pump reveals closure of the cytoplasmic headpiece with calcium binding.
(2012) PLoS One 7
PubMed: 22808146 | PubMedCentral: PMC3394785 | DOI: 10.1371/journal.pone.0040369
In particular, the first two crystal structures of SERCA representative of E2 ( Fig. 1A , 1IWO)  and E1 ( Fig. 1A , 1SU4)  suggested that Ca-binding resulted in a large-amplitude (>20 ... 000c5;) opening of the cytoplasmic headpiece.
Publication Year: 2012
A plausible mechanism for the antimalarial activity of artemisinin: A computational approach.
(2013) Sci Rep 3
PubMed: 23985481 | PubMedCentral: PMC3756341 | DOI: 10.1038/srep02513
Closed conformation of PfATP6 models were built using 1IWO as template.
Publication Year: 2013
iMODS: internal coordinates normal mode analysis server.
(2014) Nucleic Acids Res 42
PubMed: 24771341 | PubMedCentral: PMC4086069 | DOI: 10.1093/nar/gku339
Upon fetching the initial (open, PDB ID: 1su4) and target structures (closed, PDB ID: 1iwo), the computation of the conformational transition pathway begins.
Accession Numbers PDB IDs: 1su4, 1iwo and 1sx4.
Publication Year: 2014
Mechanistic studies of the biogenesis and folding of outer membrane proteins in vitro and in vivo: what have we learned to date?
(2014) Arch Biochem Biophys 564
PubMed: 24613287 | PubMedCentral: PMC4262575 | DOI: 10.1016/j.abb.2014.02.011
Structures of (a) the transmembrane segment of a glycophorin A monomer from human erythrocyte membranes solved by NMR spectroscopy (1AFO  ); (b) bacteriorhodopsin, a seven-helical bundle from the... purple membrane of Halobacterium salinarum (1C3 W  ); (c) calcium ATPase 1 from the sarcoplasmic reticulum membrane of Oryctolagus cuniculus , a ten-helical bundle with a large cytoplasmic domain (1IWO  ); (d) PagP, an 8-stranded palmitoyl transferase enzyme from E. coli (1THQ  ); (e) the 8-stranded transmembrane domain of OmpA, an ion channel from E. coli (1BXW  ), with the C-terminal periplasmic domain (structure currently not determined) represented by a red circle; (f) the 10-stranded OM protease, OmpT, from E. coli (1I78  ); (g) the 12-stranded, colicin-secreting phospholipase A, OmpLA, from E. coli (1QD5  ); (h) the OmpF porin, a trimer comprised of three 16-stranded β-barrels, from E. coli (2ZFG  ) and (i) the 24-stranded translocation domain of PapC from E. coli (3FIP  ).
PubMed ID is not available.
Published in 2015
A preliminary search indicated three main templates on PDB: 2O9J, 3BA6 and 1IWO, with 43%, 49% and 43.5% identity, respectively.
This protein was constructed by comparative modelling using the three-dimensional structure of a homologous protein, 1IWO, as a scaffold.
TABLE Rigid and flexible binding energy (Kcal/mol) of molecular docking between ent -kaurane diterpenes (8, 9 and 21) and thapsigargin against PfATP6 and 1IWO Compounds 1IWO PfATP6 1IWO PfATP6 Rigid Flexible 8 -7.6 -7.7 -7.1 -6.6 9 -7.6 -7.8 -6.6 -6.3 21 -9.5 -8.4 -7.4 -6.8 Thapsigargin -7.7 -7.2 -5.8 -4.7 Fig. 2 : interactions of thapsigargin (A) and ent -kaurane diterpene 21 (B) with the PfATP6 binding site.
Publication Year: 2015
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