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Is a tool to search for iron-sulfur proteins in proteins/proteomes with high recall and precision! MetalPDB collects and allows easy access to the knowledge on metal sites in biological macromolecules, starting from the structural information contained in the Protein Data Bank (PDB). A database of metal sites in biological macromolecular structures. Andreini C, Cavallaro G, Lorenzini S, Rosato A. 2013 Jan;41(Database issue): D312-9. Epub 2012 Nov 15. [PMID: 23155064.

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Search: Search @ MetalWeb | metalweb.cerm.unifi.it Reviews

<META> DESCRIPTION

Is a tool to search for iron-sulfur proteins in proteins/proteomes with high recall and precision! MetalPDB collects and allows easy access to the knowledge on metal sites in biological macromolecules, starting from the structural information contained in the Protein Data Bank (PDB). A database of metal sites in biological macromolecular structures. Andreini C, Cavallaro G, Lorenzini S, Rosato A. 2013 Jan;41(Database issue): D312-9. Epub 2012 Nov 15. [PMID: 23155064.

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1 keyword search

2 pdb id

3 ec number

4 macromolecule name

5 uniprot id

6 metal search

7 sequence search

8 advanced search

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10 coordination spheres

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keyword search,pdb id,ec number,macromolecule name,uniprot id,metal search,sequence search,advanced search,download,coordination spheres,sites,tools,findgeo,metals2,metals3,metalpredator,statistics,summary,metals in pdb,per geometry,metals domains

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Search: Search @ MetalWeb | metalweb.cerm.unifi.it Reviews

https://metalweb.cerm.unifi.it

Is a tool to search for iron-sulfur proteins in proteins/proteomes with high recall and precision! MetalPDB collects and allows easy access to the knowledge on metal sites in biological macromolecules, starting from the structural information contained in the Protein Data Bank (PDB). A database of metal sites in biological macromolecular structures. Andreini C, Cavallaro G, Lorenzini S, Rosato A. 2013 Jan;41(Database issue): D312-9. Epub 2012 Nov 15. [PMID: 23155064.

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metalweb.cerm.unifi.it

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Interactive_Statistics: Interactive_Statistics @ MetalWeb

http://metalweb.cerm.unifi.it/statistics_interactive/metals_domains

Download csv file of data to draw following charts. Pfam in representative MFSs. Statisotcs are calculated on the number of most recurrent Pfam code among equivalent sites. Cath superfamilies in representative MFSs. Statisotcs are calculated on the number of most recurrent Cath code among equivalent sites. Scop superfamilies in representative MFSs. Statisotcs are calculated on the number of most recurrent Scop code among equivalent sites. Statistics based on a total of 124898.

2

Help: Help @ MetalWeb

http://metalweb.cerm.unifi.it/help/glossary

Classification based on mapping endogenous ligands. Belonging to a polypeptide chain onto the CATH database. The geometrical arrangement of the atoms bound to a metal atom. It is described on the basis of the nearest idealized geometry as determined by the FindGeo. Program. Depending on the degree of matching with the nearest idealized geometry, the coordination geometry can be tagged as regular. The number of atoms to which a metal atom is bound. The set of ligands. For a metal atom. And/or for the chem...

3

Interactive_Statistics: Interactive_Statistics @ MetalWeb

http://metalweb.cerm.unifi.it/statistics_interactive/per_geometry

Select a geometry from the FindGeo library of geometries. The library of FindGeo includes a total of 36 ideal coordination geometries, which are shown below. Each geometry is identified by a three-letter code. Click on a Figure to start the analysis. Is the Coordination Number. Is a 3-letters code identifier for the coordination geometry. Trigonal plane with a vacancy. Tetrahedron with a vacancy. Square plane with a vacancy. Trigonal bipyramid with a vacancy (axial). Trigonal prism with a vacancy.

4

Statistics: Statistics @ MetalWeb

http://metalweb.cerm.unifi.it/statistics/summary

MetalPDB Statistics - Summary. Number of PDB structures. Statistics based on a total of 124898. Last database update: 2017-02-24. Developed at CERM - University of Florence.

5

Tools: Tools @ MetalWeb

http://metalweb.cerm.unifi.it/tools/metals2

Go to Metal PDB. Searching for metals. Please wait. Is a tool for pairwise structural alignment of Minimal Functional Sites. MFSs) found in metal-binding biological macromolecules. If you want to search the MetalPDB database for structuraly similar sites, you can use the MetalS. Input Query Site (Site 1). Metal of interest (optional):. Input Target Site (Site 2). Metal of interest (optional):. A tool for the structural alignment of minimal functional sites in metal-binding proteins and nucleic acids.

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Search: Search @ MetalWeb

Is a tool to search for iron-sulfur proteins in proteins/proteomes with high recall and precision! MetalPDB collects and allows easy access to the knowledge on metal sites in biological macromolecules, starting from the structural information contained in the Protein Data Bank (PDB). A database of metal sites in biological macromolecular structures. Andreini C, Cavallaro G, Lorenzini S, Rosato A. 2013 Jan;41(Database issue): D312-9. Epub 2012 Nov 15. [PMID: 23155064.

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