Citations in PubMed

Primary Citation PubMed: 11021803 Citations in PubMed

PDB ID Mentions in PubMed Central Article count: 4

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.

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Exploring the binding of BACE-1 inhibitors using comparative binding energy analysis (COMBINE).

(2012) BMC Struct Biol 12

PubMed: 22925713 | PubMedCentral: PMC3533579 | DOI: 10.1186/1472-6807-12-21

From the comparative analysis of the BACE-1 X-ray structures, it is clear that the 10S loop, a short loop located at the base of the S 3 sp, displays two primary low-energy conformations: an open conf... rmation (e.g., 1W51, 1TQF, 2F3E and 2B8V) and a closed conformation (e.g., 1FKN, 1M4H and 1XS7).

The 46 X-ray structures of BACE-1/inhibitor complexes used in this study are 1W51, 1TQF, 1YM2, 1YM4, 2B8V, 2F3E, 2F3F, 2IQG, 2IRZ, 2IS0, 2OAH, 2OHL, 2OHM, 2OHP, 2OHQ, I2OHR, 2OHS, 2OHT, 2OHU, 2P83, 2PH6, 2B8L, 2QZL, 2ZE1, 2QP8, 2VIE, 2VJ7, 2VJ9, 2VNM, 2VNN, 2WF0, 2WF1, 2ZDZ, 2FDP, 3CIB, 3CIC, 3CID, 3DUY, 3DV1, 2P4J, 3FKT, 2QK5, 1XS7, 1FKN and 1M4H.

Cartoon representation of the active site of the four BACE-1 X-ray structures used for the superposition study (1W51, 1FKN, 2OHL, and 2OHS are in green, cyan, magenta and yellow, respectively) with compound 1 shown as ball and sticks; hydrogen atoms are omitted for reasons of clarity.

Publication Year: 2012

Application of computational methods for the design of BACE-1 inhibitors: validation of in silico modelling.

(2014) Int J Mol Sci 15

PubMed: 24663084 | PubMedCentral: PMC3975444 | DOI: 10.3390/ijms15035128

The worst poses were predicted for peptidic inhibitors from 1FKN, 1M4H and 1TQF crystal structures.

Publication Year: 2014

Amino acid sequence and structural comparison of BACE1 and BACE2 using evolutionary trace method.

(2014) ScientificWorldJournal 2014

PubMed: 25254246 | PubMedCentral: PMC4164807 | DOI: 10.1155/2014/482463

Crystal structures of human BACE1 and BACE2 with the PDB codes 1FKN and 2EWY, respectively, were retrieved from Protein Data Bank (PDB) [ 16 ] and visualized by Python based Molecular Viewer software ... 17 ].

The amino acid numbering of BACE1 and BACE2 sequences is according to their 3D structures obtained from PDB file, 1FKN, and 2EWY, respectively.

Figure 4 Superimposition of chain A of crystal structures of BACE1 (1FKN) and BACE2 (2EWY), where BACE1 is coloured blue and BACE2 is coloured green.

Superimposition of the crystal structures of BACE1 (1FKN) and BACE2 (2EWY) gave a root-mean-square deviation (RMSD) of 1.46 over 373 C-alpha atoms indicating that the structures of BACE1 and BACE2 are very similar to each other ( Figure 4 ).

We mapped the ligand binding sites and their ET status onto the chain A of crystal structures of BACE1 (1FKN) and BACE2 (2EWY) ( Figure 5 ).

Publication Year: 2014

Coffee and caffeine potentiate the antiamyloidogenic activity of melatonin via inhibition of A? oligomerization and modulation of the Tau-mediated pathway in N2a/APP cells.

(2015) Drug Des Devel Ther 9

PubMed: 25565776 | PubMedCentral: PMC4284031 | DOI: 10.2147/DDDT.S71106

Materials and methods Molecular docking We employed the Discovery Studio program 3.1 designed by Accelrys Inc. (San Diego, CA, USA) to dock Caff and Mel into the active sites of ten human BACE1 struct... res (protein data bank [PDB] identification codes: 1FKN, 2OHU, 1W51, 2P4J, 2VKM, 4DH6, 3DV5, 2QU3, 3U6A, and 4FRS) as previously described by us.

Publication Year: 2015