MetalDetector statistics

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MetalDetector specifications

Information


Unique identifier OMICS_12271
Name MetalDetector
Interface Web user interface
Restrictions to use None
Input data An amino acid sequence.
Input format The input sequence can be entered either as a plain amino acid string or in FASTA format.
Output data It consists of a table having an entry for each CYS and HIS, with the indication of its position within the sequence, its predicted bonding state and, if the residue was predicted as metal bonded, the assigned metal ion identifier.
Computer skills Basic
Version 2.0
Stability Stable
Maintained Yes

Information


Unique identifier OMICS_12271
Name MetalDetector
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Version 2.0
Stability Stable
Maintained Yes

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Publications for MetalDetector

MetalDetector in publications

 (6)
PMCID: 5493369
PMID: 28665962
DOI: 10.1371/journal.pone.0180242

[…] the protein; alkylation did not affect its metal binding activity by thermal shift assays. bioinformatics prediction servers based on protein sequence (zincpred, metalpredator, zincexplorer, metaldetector v2.0) yielded ambiguous results regarding the residues that might be directly involved in metal chelation., in order to identify whether endogenous metals are bound in recombinantly […]

PMCID: 5482196
PMID: 28167677
DOI: 10.1042/BSR20160179

[…] are then used to search for similar patterns in newly identified proteins. machine learning methods have also been introduced to the problem only recently [,–]. programs such as metalpredator [], metaldetector v2.0 [], seqched server [], zincfinder [], svmprot [,] employ sequence based approaches for the prediction of the metal ion-binding sites. for instance metaldetector v2.0 [] uses […]

PMCID: 4267844
PMID: 25514156
DOI: 10.1371/journal.pone.0115390

[…] 18.6 kda) with low polydispersity, indicating that the small species is mono-disperse and is likely not in equilibrium with the larger species., given that bd0108 has a predicted disulfide by metaldetector (), we hypothesized that the larger species may be a result of improper disulfide formation during over-expression and/or concentration. to test this, we ran an sds-page gel of bd0108 […]

PMCID: 3977119
PMID: 24778647
DOI: 10.1155/2014/501841

[…] than glutamic acid and histidine., information on amino acid preferences and geometry of coordination spheres is used in algorithms for metal binding sites prediction, such as findsite-metal [], metaldetector v2.0 [], fold-x [], and flexx []. however, the information on preferable 3d structural motifs is available mostly for ca2+ and zn2+ binding proteins. well-known ef-hand motif for ca2+ […]

PMCID: 3911697
PMID: 24155369
DOI: 10.1128/JVI.02595-13

[…] of cbpv and negeviruses corresponds to 50 aa in the n-terminal or central part of orf2, which contains nine conserved residues, including four cysteines (), predicted to form disulfide bridges by metaldetector (). outside of this region, we could detect no further sequence or secondary-structure similarity between orf2 of cbpv and that of negeviruses. however, they are similar […]


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MetalDetector institution(s)
Dipartimento di Ingegneria e Scienza dell'Informazione, Università degli Studi di Trento, Povo di Trento, Italy; Dipartimento di Sistemi e Informatica, Università degli Studi di Firenze, Firenze, Italy

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