Citations in PubMed

Primary Citation PubMed: 16505382 Citations in PubMed

PDB ID Mentions in PubMed Central Article count: 6

Citations in PubMed

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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.

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AChBP-targeted alpha-conotoxin correlates distinct binding orientations with nAChR subtype selectivity.

(2007) EMBO J 26

PubMed: 17660751 | PubMedCentral: PMC1952216 | DOI: 10.1038/sj.emboj.7601785

The protein structure was solved by molecular replacement with PHASER ( McCoy et al, 2005 ) and the open C-loop structure of Ac-AChBP as the search model (PDB accession code 2C9T).

An electrostatic interaction was also observed between Arg7 of conotoxin ImI and Asp195 in only one of the two available Ac-AChBP co-crystal structures (PDB accession codes 2BYP and 2C9T).

Publication Year: 2007

Binding of long-chain alpha-neurotoxin would stabilize the resting state of nAChR: a comparative study with alpha-conotoxin.

(2009) Theor Biol Med Model 6

PubMed: 19210780 | PubMedCentral: PMC2649906 | DOI: 10.1186/1742-4682-6-3

Subsequent visual analysis in the Swiss-pdb Viewer allowed us to reject those solutions that were not in at least rough accordance with the available biochemical and mutagenesis data for long-chain al... ha neurotoxins, and in the case of α-conotoxin GI, the complex was compared to the X-ray structure of the AChBP with conotoxin IMI (PDB code: 2C9T ).

Publication Year: 2009

Blockade of neuronal ?7-nAChR by ?-conotoxin ImI explained by computational scanning and energy calculations.

(2011) PLoS Comput Biol 7

PubMed: 21390272 | PubMedCentral: PMC3048385 | DOI: 10.1371/journal.pcbi.1002011

g004 Figure 4 Comparison of the binding site of AChBP/ImI complex (PDB ID: 2c9t), α7-nAChR/ImI complex (model, this work) and α1-nAChR/bungarotoxin complex (PDB ID: 2qc1).

In our model, the structure of AChBP in complex with ImI (PDB ID: 2c9t) was used to derive restraints in the C-loop region because AChBP has locally higher sequence identity than α1, and because the C-loop conformation in the AChBP structure allows ImI to fit in the binding site.

The multiple alignment between AChBP, α7 and α1 was then manually adjusted based on structural superimpositions of the crystal structures of AChBP (PDB ID: 2c9t) and α1 (PDB ID: 2qc1).

The crystallographic structures of ImI bound to an Aplysia californica acetylcholine binding protein (AChBP), which is distantly related to nAChRs, (PDB ID: 2c9t) [34] and of bungarotoxin bound to the LBD of an isolated subunit α1 (PDB ID: 2qc1) [35] were used to build the initial model, using comparative modeling.

An X-ray diffraction structure of the complex between ImI and AChBP (PDB ID: 2c9t) was used to provide restraints between ImI and the nAChR and also structural restraints to ImI conformation.

As the electron microscopy structure is of low resolution (4 Å), the AChBP structures (PDB ID: 2c9t) were employed as structural templates in our comparative modeling strategy to orient the five α7 subunits in the pentamer.

In the alignment, the residues of AChBP in contact with ImI in the crystal structure 2c9t are underlined in blue for positions in the principal subunit and in white for positions in the complementary subunit.

Publication Year: 2011

A structural and mutagenic blueprint for molecular recognition of strychnine and d-tubocurarine by different cys-loop receptors.

(2011) PLoS Biol 9

PubMed: 21468359 | PubMedCentral: PMC3066128 | DOI: 10.1371/journal.pbio.1001034

Comparison with residue contacts formed by α-conotoxin ImI, which has high selectivity for distinct nAChR-subtypes (pdb code 2c9t [33] ), demonstrates that this peptide antagon... st forms residue contacts that overlap with interactions seen for strychnine and d-TC but extend to a much wider range of residues ( Table S2 ).

Similar to other AChBP co-crystal structures (e.g. pdb code 2c9t) the symmetry packing in this crystal form is characterized by an interaction of neighboring pentamers through an interface formed by two C loops ( Figure 2A ).

Accession Numbers Protein Data Bank accession codes for previously published X-ray crystal structures are: Ac-AChBP in complex with lobeline (2bys), epibatidine (2byq), imidacloprid (3c79), thiacloprid (3c84), HEPES (2br7), polyethyleneglycol (2byn), DMXBA (2wnj), 4OH-DMXBA (2wn9), cocaine (2pgz), anabaseine (2wnl), in silico compound 31 (2w8f), MLA (2byr), in silico compound 35 (2w8g), sulfates (3gua), α-conotoxin ImI (2c9t and 2byp), α-conotoxin PnIA variant (2br8), α-conotoxin TxIA (2uz6), apo state (2w8e), Y53C-MMTS (2xz5) with acetylcholine, Y53C-MTSET (2xz6).

Publication Year: 2011

Assembly of a ?-? stack of ligands in the binding site of an acetylcholine-binding protein.

(2013) Nat Commun 4

PubMed: 23695669 | PubMedCentral: PMC3674282 | DOI: 10.1038/ncomms2900

Taken together, the three stacked molecules of VUF9432 occupy a large volume and bury a substantial surface area in AChBP (959.9±4.8 Å 2 ) comparable with the area buried by co... otoxins IMI 20 (PDB:2C9T) and PnIA 19 (PDB:2BR8) (1164 Å 2 and 1468 Å 2 , respectively).

Publication Year: 2013

Crystal structure of a human GABAA receptor.

(2014) Nature 512

PubMed: 24909990 | PubMedCentral: PMC4167603 | DOI: 10.1038/nature13293

a, Structural alignment of GABA A R-β3 cryst and GluClα (PDB ID: 3RIF, red backbone, with its agonist glutamate in orange); b, Structural alignment of GABA A R-β3 cryst and ACh... P (PDB ID: 1UV6, red backbone) with agonist carbamylcholine bound (orange backbone); c, Structural alignment of GABA A R-β3 cryst and AChBP (PDB ID: 2BYN, red backbone) in apo form; d, Structural alignment of GABA A R-β3 cryst and AChBP (PDB ID: 2C9T, red backbone) in an inhibitor toxin bound form (the toxin was excluded for clarity).

Publication Year: 2014