MetalS2 specifications

Information


Unique identifier OMICS_07667
Name MetalS2
Alternative name MetalS²
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input format PDB
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


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Maintainer


  • person_outline Claudia Andreini <>

Information


Unique identifier OMICS_07667
Name MetalS2
Alternative name MetalS²
Interface Web user interface
Restrictions to use None
Input format PDB
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Claudia Andreini <>

Publication for MetalS2

MetalS2 in publications

 (6)
PMCID: 5760197
PMID: 29161638
DOI: 10.1016/j.jinorgbio.2017.11.002

[…] describing the structures deposited in the pdb (protein data bank) ; metalpdb ; metal-macie ; pdbsprotec ; brenda . to compare metal-binding sites of metalloenzymes with known structure we used the metals2 tool (metal sites superposition tool) ; to identify metal-binding sites structurally similar to a given metal-binding site we searched the metalpdb database using the metals3 (metal sites […]

PMCID: 5482196
PMID: 28167677
DOI: 10.1042/BSR20160179

[…] transformation method [] combine information from both protein sequence and structure. use of ab initio methods as in ioncom [] server has also been recently realized. several helper tools such as metals2 [], metals3 [], findgeo [], checkmymetal (cmm) [] were developed for pairwise structural alignment, database mining of metal-binding sites, determination of metal co-ordination geometry, […]

PMCID: 4881497
PMID: 27153067
DOI: 10.3390/ijms17050671

[…] fragmented nature of mfss makes it difficult to use standard software for their sequence or structural comparison. this was one of the reasons that warranted the development of a specialized tool, metals2, for the structural superposition of mfss. metals2 is described in the next section., displays the distribution for different metals of the number of fragments containing at least one ligand […]

PMCID: 4692778
PMID: 26709467
DOI: 10.3791/53044

[…] the time to fabricate optical chemical nanosensors/adsorbents; however, optical adsorbents are still used for specific real-world sensing, extraction, and recovery applications for a wide range of metals28-36. recently, research has focused on tailoring specific solid mesoporous monoliths for use as highly sensitive sensors for the simple and simultaneous naked-eye detection and removal […]

PMCID: 4377587
PMID: 25820752
DOI: 10.1038/srep09486

[…] are extracted from the metalpdb database of minimal functional sites (mfss) in metal-binding biological macromolecules. structural similarity is measured by the scoring function of the available metals2 program. hierarchical clustering was used to organize mfss into clusters, for each of which a representative mfs was identified. the comparison of all representative mfss provided a thorough […]


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MetalS2 institution(s)
Magnetic Resonance Center (CERM) − University of Florence, Sesto Fiorentino, Florence, Italy; Department of Chemistry − University of Florence, Sesto Fiorentino, Florence, Italy
MetalS2 funding source(s)
Supported by MIUR (Ministero Italiano dell’Università e della Ricerca), through the FIRB projects RBFR08WGXT and RBRN07BMCT and the PRIN project 2009FAKHZT, and by the European Commission through the BioMedBridges project (grant no 284209).

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