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CueMol specifications

Information


Unique identifier OMICS_14095
Name CueMol
Software type Package/Module
Interface Graphical user interface
Restrictions to use Academic or non-commercial use
Input data Molecular coordinates, electron density, MSMS surface data, and APBS electrostatic potential map
Input format PDB, CCP4, CNS, MTZ
Operating system Unix/Linux, Mac OS, Windows
Programming languages C++
License GNU General Public License version 3.0
Computer skills Medium
Version 2.2.2.397
Stability Stable
Maintained Yes

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CueMol citations

 (27)
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Ligand complex structures of l‐amino acid oxidase/monooxygenase from Pseudomonas sp. AIU 813 and its conformational change

2018
FEBS Open Bio
PMCID: 5832979
PMID: 29511608
DOI: 10.1002/2211-5463.12387
call_split See protocol

[…] x . The resultant F o–F c and 2F o–F c maps yielded an electron density that corresponded to the soaked substrate. Figures were prepared using Open Source pymol (Schrödinger, LLC, New York, NY, USA), cuemol (http://www.cuemol.org/), and caver 3.0 . […]

call_split

Structural basis for xenobiotic extrusion by eukaryotic MATE transporter

2017
Nat Commun
PMCID: 5696359
PMID: 29158478
DOI: 10.1038/s41467-017-01541-0
call_split See protocol

[…] l model was manually rebuilt using COOT and was refined using the program PHENIX. The data collection and refinement statistics are summarized in Table . All molecular graphics were illustrated using CueMol (http://www.cuemol.org/). […]

call_split

Small molecule inhibition of TLR8 through stabilization of its resting state

2017
Nat Chem Biol
PMCID: 5726935
PMID: 29155428
DOI: 10.1038/nchembio.2518
call_split See protocol

[…] 8m, and 94 % and 5 % for TLR8/CU-CPT9b. The statistics of the data collection and refinement are summarized in . The figures representing structures were prepared with PyMOL (http://www.pymol.org) or CueMol (http://www.cuemol.org). Coordinates and structure factor have been deposited in the Protein Data Bank with PDB ID 5WYX (TLR8/CU-CPT8m), and 5WYZ (TLR8/CU-CPT9b). […]

library_books

Optimized light inducible transcription in mammalian cells using Flavin Kelch repeat F box1/GIGANTEA and CRY2/CIB1

2017
Nucleic Acids Res
PMCID: 5714181
PMID: 29040770
DOI: 10.1093/nar/gkx804

[…] with known templates in SWISS-MODEL (Biozentrum) that produced a high identity with the putative blue right receptor (1.n9o.1.A). This was used to generate a homology model that was visualized using CueMol2. […]

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ATP dependent modulation of MgtE in Mg2+ homeostasis

2017
Nat Commun
PMCID: 5529423
PMID: 28747715
DOI: 10.1038/s41467-017-00082-w
call_split See protocol

[…] ed through iterative cycles of manual building with COOT and refinement with the program PHENIX. The structure refinement statistics are summarized in Table . Molecular graphics were illustrated with CueMol (http://www.cuemol.org). […]

library_books

Frutapin, a lectin from Artocarpus incisa (breadfruit): cloning, expression and molecular insights

2017
Biosci Rep
PMCID: 5520216
PMID: 28684550
DOI: 10.1042/BSR20170969

[…] ctures were submitted to PDB_REDO [] for final optimization of the refinement. Omit maps were generated using the program Composite omit map in the Phenix program suite []. C,D were prepared by using CueMol (Molecular Visualization Framework; http://www.cuemol.org/). Parameters for data collection, data processing and structure determination are shown in . The co-ordinates and structure factors ha […]

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