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|Interface||Web user interface|
|Restrictions to use||Academic or non-commercial use|
|Source code URL||http://cssb.biology.gatech.edu/skolnick/files/LHM/FINDSITE-metal/findsitemetal-1.0.tar.gz|
Publication for FINDSITE-metal
Computational approaches for de novo design and redesign of metal binding sites on proteins
[…] the other hand, MetalPredator  utilizes two libraries of Hidden Markov Model profiles representative of Pfam domains and structural motifs that bind Fe/S clusters. Some prediction software such as FINDSITE-metal , mFASD , TEMSP , FEATURE metal scanning [–] utilize structural information for prediction of the metal ion-binding sites. A few of them such as MetSite , 3DLigandSite , Fragm […]
Secondary Structure Preferences of Mn2+ Binding Sites in Bacterial Proteins
[…] r preference to bind Mn2+ 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-han […]
Unleashing the power of meta threading for evolution/structure based function inference of proteins
[…] ly structurally similar to the target. Similar criteria are commonly used for the template identification in protein function prediction. For example, to collect functional templates, FINDSITE () and FINDSITE-metal () use a threading Z-score of ≥4, a threshold that is also used in the detection of structural templates in TASSER (). A similar method, @TOME-2, employs meta-threading to detect templa […]
Candida albicans Scavenges Host Zinc via Pra1 during Endothelial Invasion
[…] the predicted structures. The Pra1 best structural hit (Deuterolysin from A. oryzae) was additionally identified using SWISS-MODEL tool (swissmodel.expasy.org) and metal binding sites predicted with Findsite-metal (cssb.biology.gatech.edu/findsite-metal) and 3D ligand site (www.sbg.bio.ic.ac.uk/3dligandsite). To predict interactions between the two proteins, the structures generated in Phyre2 we […]
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