Replication Data for: Reversible Triply Interlocked Main-Group Cages Al6L4 and Ga6L4

DOI

This dataset contains all the data from computational calculations regarding structure analysis of the main-group cages described in the main paper. It consists of DFT optimization calculations, providing both inputs and outputs, the optimized geometry, the input for wavefunction-based determination of NCI and density functions for promolecular-based plotting of the NCI. DFT and wavefunction-based NCI data comes from Gaussian program. Promolecular NCI plotting files are provided as color mapping data.

This dataset provides the script used to generate combinatorial sequences of amino acids as well as the resulting list of sequences. Also, it provides the starting points to run MD simulations of two peptides and two metallopeptides systems extracted from the previous sequences. It includes all starting coordinates and parameters generated to simulate the metal coordination interactions.

Gaussian, 9

Calculations were performed using Gaussian16 software, using B3LYP functional combined with the Grimme’s D3 correction for dispersion. Structures were optimized employing basis set 6-31g(d) for all the atoms. The Non Covalent Interaction analysis (NCI) was performed based on a 2D plot of the reduced density gradient, s, and the electron density, ρ. The method bases its estimations on computing the reduced gradient of the electron density (s) versus the electron density (ρ) multiplied by the sign of the second Hessian eigenvalue (λ2). Strong stabilizing interactions typically correspond to values of ρ > 0.01 a.u. and λ2 > 0, whereas strong destabilizing interactions are associated with values of ρ > 0.01 a.u. and λ2> 0. For delocalized weak interactions both density and gradient are small (typically ρ < 0.01 a.u. and λ2 ~ 0). The Non Covalent Interaction Analysis (NCI) reported in this work was carried out with NCIPlot. NCI were first computed employing the DFT electron densities of the optimized structures; for clarity, the representation of the isosurfaces were constructed at promolecular level reporting the DFT density map.

Identifier
DOI https://doi.org/10.34810/data2420
Metadata Access https://dataverse.csuc.cat/oai?verb=GetRecord&metadataPrefix=oai_datacite&identifier=doi:10.34810/data2420
Provenance
Creator Izquierdo, Ignacio ORCID logo; Martínez-Castro, Laura ORCID logo; Ujaque, Gregori ORCID logo; Martínez-Martínez, Antonio J. ORCID logo
Publisher CORA.Repositori de Dades de Recerca
Contributor Ujaque, Gregori; Universitat Autònoma Barcelona
Publication Year 2025
Funding Reference Agencia Estatal de Investigación PID2022-142270OB-I00 ; Agencia Estatal de Investigación PID2023 150881NB-I00 ; Generalitat de Catalunya 2021/FISDU-00034 ; Ministerio de Ciencia e Innovación CNS2022-136087 ; European Research and Development Fund (ERDF) and the University of Huelva EPIT1442023
Rights CC0 1.0; info:eu-repo/semantics/openAccess; http://creativecommons.org/publicdomain/zero/1.0
OpenAccess true
Contact Ujaque, Gregori (Universitat Autònoma de Barcelona)
Representation
Resource Type Program source code; Dataset
Format text/x-fixed-field; chemical/x-xyz; application/octet-stream; text/html; text/plain
Size 15080; 13860; 10617055; 77484412; 1143950783; 557335612; 557335629; 1143950800; 633708817; 1143951299; 1143951316; 633708834; 1143951170; 594960245; 594960262; 1143951187; 14079; 25724918; 10613; 69016265; 10255
Version 1.0
Discipline Chemistry; Natural Sciences