| Server/ URL . | Functionality . | Inputsa . | Outputsb . | Vac . | Advantages . | Limitations . | Year . |
|---|---|---|---|---|---|---|---|
| Detect single-point mutation | |||||||
| mCSM http://structure.bioc.cam.ac.uk/mcsm | Predicts the change in protein stability (∆∆G) | PDB file or code, mutation chain, mutations | RSA(%), ∆∆G, stability outcome | N | Can also evaluate mutation impact on protein–protein and protein-nucleic acid interactions | There are no visualizations of predicted mutation structures | 2013 |
| DUET http://structure.bioc.cam.ac.uk/duet | Predicts the change in protein stability (∆∆G) upon single-point mutation | WT structure (PDB format), mutations | ∆∆G, stability outcome, visible MT structure | Y | Consolidates two complementary approaches (mCSM and SDM) | Mutation lists are not allowed | 2014 |
| STRUM https://zhanggroup.org/STRUM/ | Predicts effects of mutations on protein stability | FASTA, PDB file, mutation details | ∆∆G, visible MT structure | Y | Can predict mutation-induced stability change by low-resolution structure modeling | It takes a long time to compute, mutation lists are not allowed | 2016 |
| SDM http://structure.bioc.cam.ac.uk/sdm2 | Predicts effects of mutations on protein stability | PDB file or code, mutation, mutation chain | ∆∆G, stability outcome, visible MT structure, environment | Y | The most appropriate method to use in combination with many other methods | The accuracy of forecasts needs to be improved | 2017 |
| PremPShttps://lilab.jysw.suda.edu.cn/research/PremPS/ | Predicts impact of mutations on protein stability | PDB file or code, mutation chain, mutation | ∆∆G, MT structure, start time and processing time | Y | More accurately, large-scale mutational scanning | The accuracy of forecasts needs to be improved | 2020 |
| mCSM-membranehttp://biosig.unimelb.edu.au/mcsm membrane | Predicts effects of mutations on protein stability | PDB file or code, mutation chain, mutation | ∆∆G, stability outcome, MT structure, predicted transmembrane topology | Y | The effects of resistance mutations can be predicted based on structure and sequence | The accuracy of forecasts needs to be improved | 2020 |
| Detect single and multiple point mutation | |||||||
| MAESTROweb https://biwww.che.sbg.ac.at/maestro/web | Protein stability prediction | PDB file or ID, mutation details | ∆∆G, MT structure | Y | Suitable for multimeric structures, provides a scan functionality for the most (de)stabilizing n-point mutations for a maximum of n = 5 | Mutation lists are not allowed | 2016 |
| DynaMut2 http://biosig.unimelb.edu.au/dynamut2. | Predicts protein stability change upon mutation | PDB file or code, mutation chain, mutation, and e-mail | Average distance, ∆∆G and MT structure | Y | Introduces the dynamics component to mutation analysis | Less computing resources | 2020 |
| Server/ URL . | Functionality . | Inputsa . | Outputsb . | Vac . | Advantages . | Limitations . | Year . |
|---|---|---|---|---|---|---|---|
| Detect single-point mutation | |||||||
| mCSM http://structure.bioc.cam.ac.uk/mcsm | Predicts the change in protein stability (∆∆G) | PDB file or code, mutation chain, mutations | RSA(%), ∆∆G, stability outcome | N | Can also evaluate mutation impact on protein–protein and protein-nucleic acid interactions | There are no visualizations of predicted mutation structures | 2013 |
| DUET http://structure.bioc.cam.ac.uk/duet | Predicts the change in protein stability (∆∆G) upon single-point mutation | WT structure (PDB format), mutations | ∆∆G, stability outcome, visible MT structure | Y | Consolidates two complementary approaches (mCSM and SDM) | Mutation lists are not allowed | 2014 |
| STRUM https://zhanggroup.org/STRUM/ | Predicts effects of mutations on protein stability | FASTA, PDB file, mutation details | ∆∆G, visible MT structure | Y | Can predict mutation-induced stability change by low-resolution structure modeling | It takes a long time to compute, mutation lists are not allowed | 2016 |
| SDM http://structure.bioc.cam.ac.uk/sdm2 | Predicts effects of mutations on protein stability | PDB file or code, mutation, mutation chain | ∆∆G, stability outcome, visible MT structure, environment | Y | The most appropriate method to use in combination with many other methods | The accuracy of forecasts needs to be improved | 2017 |
| PremPShttps://lilab.jysw.suda.edu.cn/research/PremPS/ | Predicts impact of mutations on protein stability | PDB file or code, mutation chain, mutation | ∆∆G, MT structure, start time and processing time | Y | More accurately, large-scale mutational scanning | The accuracy of forecasts needs to be improved | 2020 |
| mCSM-membranehttp://biosig.unimelb.edu.au/mcsm membrane | Predicts effects of mutations on protein stability | PDB file or code, mutation chain, mutation | ∆∆G, stability outcome, MT structure, predicted transmembrane topology | Y | The effects of resistance mutations can be predicted based on structure and sequence | The accuracy of forecasts needs to be improved | 2020 |
| Detect single and multiple point mutation | |||||||
| MAESTROweb https://biwww.che.sbg.ac.at/maestro/web | Protein stability prediction | PDB file or ID, mutation details | ∆∆G, MT structure | Y | Suitable for multimeric structures, provides a scan functionality for the most (de)stabilizing n-point mutations for a maximum of n = 5 | Mutation lists are not allowed | 2016 |
| DynaMut2 http://biosig.unimelb.edu.au/dynamut2. | Predicts protein stability change upon mutation | PDB file or code, mutation chain, mutation, and e-mail | Average distance, ∆∆G and MT structure | Y | Introduces the dynamics component to mutation analysis | Less computing resources | 2020 |
aWT: wild-type.
bMT: mutant-type.
cWhether the visualization of network is supported in each tool.
| Server/ URL . | Functionality . | Inputsa . | Outputsb . | Vac . | Advantages . | Limitations . | Year . |
|---|---|---|---|---|---|---|---|
| Detect single-point mutation | |||||||
| mCSM http://structure.bioc.cam.ac.uk/mcsm | Predicts the change in protein stability (∆∆G) | PDB file or code, mutation chain, mutations | RSA(%), ∆∆G, stability outcome | N | Can also evaluate mutation impact on protein–protein and protein-nucleic acid interactions | There are no visualizations of predicted mutation structures | 2013 |
| DUET http://structure.bioc.cam.ac.uk/duet | Predicts the change in protein stability (∆∆G) upon single-point mutation | WT structure (PDB format), mutations | ∆∆G, stability outcome, visible MT structure | Y | Consolidates two complementary approaches (mCSM and SDM) | Mutation lists are not allowed | 2014 |
| STRUM https://zhanggroup.org/STRUM/ | Predicts effects of mutations on protein stability | FASTA, PDB file, mutation details | ∆∆G, visible MT structure | Y | Can predict mutation-induced stability change by low-resolution structure modeling | It takes a long time to compute, mutation lists are not allowed | 2016 |
| SDM http://structure.bioc.cam.ac.uk/sdm2 | Predicts effects of mutations on protein stability | PDB file or code, mutation, mutation chain | ∆∆G, stability outcome, visible MT structure, environment | Y | The most appropriate method to use in combination with many other methods | The accuracy of forecasts needs to be improved | 2017 |
| PremPShttps://lilab.jysw.suda.edu.cn/research/PremPS/ | Predicts impact of mutations on protein stability | PDB file or code, mutation chain, mutation | ∆∆G, MT structure, start time and processing time | Y | More accurately, large-scale mutational scanning | The accuracy of forecasts needs to be improved | 2020 |
| mCSM-membranehttp://biosig.unimelb.edu.au/mcsm membrane | Predicts effects of mutations on protein stability | PDB file or code, mutation chain, mutation | ∆∆G, stability outcome, MT structure, predicted transmembrane topology | Y | The effects of resistance mutations can be predicted based on structure and sequence | The accuracy of forecasts needs to be improved | 2020 |
| Detect single and multiple point mutation | |||||||
| MAESTROweb https://biwww.che.sbg.ac.at/maestro/web | Protein stability prediction | PDB file or ID, mutation details | ∆∆G, MT structure | Y | Suitable for multimeric structures, provides a scan functionality for the most (de)stabilizing n-point mutations for a maximum of n = 5 | Mutation lists are not allowed | 2016 |
| DynaMut2 http://biosig.unimelb.edu.au/dynamut2. | Predicts protein stability change upon mutation | PDB file or code, mutation chain, mutation, and e-mail | Average distance, ∆∆G and MT structure | Y | Introduces the dynamics component to mutation analysis | Less computing resources | 2020 |
| Server/ URL . | Functionality . | Inputsa . | Outputsb . | Vac . | Advantages . | Limitations . | Year . |
|---|---|---|---|---|---|---|---|
| Detect single-point mutation | |||||||
| mCSM http://structure.bioc.cam.ac.uk/mcsm | Predicts the change in protein stability (∆∆G) | PDB file or code, mutation chain, mutations | RSA(%), ∆∆G, stability outcome | N | Can also evaluate mutation impact on protein–protein and protein-nucleic acid interactions | There are no visualizations of predicted mutation structures | 2013 |
| DUET http://structure.bioc.cam.ac.uk/duet | Predicts the change in protein stability (∆∆G) upon single-point mutation | WT structure (PDB format), mutations | ∆∆G, stability outcome, visible MT structure | Y | Consolidates two complementary approaches (mCSM and SDM) | Mutation lists are not allowed | 2014 |
| STRUM https://zhanggroup.org/STRUM/ | Predicts effects of mutations on protein stability | FASTA, PDB file, mutation details | ∆∆G, visible MT structure | Y | Can predict mutation-induced stability change by low-resolution structure modeling | It takes a long time to compute, mutation lists are not allowed | 2016 |
| SDM http://structure.bioc.cam.ac.uk/sdm2 | Predicts effects of mutations on protein stability | PDB file or code, mutation, mutation chain | ∆∆G, stability outcome, visible MT structure, environment | Y | The most appropriate method to use in combination with many other methods | The accuracy of forecasts needs to be improved | 2017 |
| PremPShttps://lilab.jysw.suda.edu.cn/research/PremPS/ | Predicts impact of mutations on protein stability | PDB file or code, mutation chain, mutation | ∆∆G, MT structure, start time and processing time | Y | More accurately, large-scale mutational scanning | The accuracy of forecasts needs to be improved | 2020 |
| mCSM-membranehttp://biosig.unimelb.edu.au/mcsm membrane | Predicts effects of mutations on protein stability | PDB file or code, mutation chain, mutation | ∆∆G, stability outcome, MT structure, predicted transmembrane topology | Y | The effects of resistance mutations can be predicted based on structure and sequence | The accuracy of forecasts needs to be improved | 2020 |
| Detect single and multiple point mutation | |||||||
| MAESTROweb https://biwww.che.sbg.ac.at/maestro/web | Protein stability prediction | PDB file or ID, mutation details | ∆∆G, MT structure | Y | Suitable for multimeric structures, provides a scan functionality for the most (de)stabilizing n-point mutations for a maximum of n = 5 | Mutation lists are not allowed | 2016 |
| DynaMut2 http://biosig.unimelb.edu.au/dynamut2. | Predicts protein stability change upon mutation | PDB file or code, mutation chain, mutation, and e-mail | Average distance, ∆∆G and MT structure | Y | Introduces the dynamics component to mutation analysis | Less computing resources | 2020 |
aWT: wild-type.
bMT: mutant-type.
cWhether the visualization of network is supported in each tool.
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