Table 1.
Webserver | Purpose | URL of webserver | Reference |
---|---|---|---|
ExPASy | Physico-chemical predictions | https://web.expasy.org/protscale/ | (Wilkins et al., 1999) |
EMBOSS | Hydrophobic moment prediction | https://www.bioinformatics.nl/cgi-bin/emboss/hmoment | (Carver & Bleasby, 2003) |
Composition profiler | Flexibility and hydrophilicity prediction | http://www.cprofiler.org/ | (Vacic et al., 2007) |
IUPred2A, PrDOS, ANCHOR2 |
Disorder prediction |
http://iupred2a.elte.hu
http://prdos.hgc.jp/cgi-bin/top.cgi http://anchor.elte.hu/ |
(Mészáros et al., 2018; Ishida & Kinoshita, 2007) |
CIDER | Conformational disorder prediction | http://pappulab.wustl.edu/CIDER/analysis/ | (Holehouse et al., 2017) |
RaptorX | Secondary structure prediction | http://raptorx.uchicago.edu/ | (Wang et al., 2016) |
NetSurfP | Surface accessibility, secondary structure, and disorder prediction | https://services.healthtech.dtu.dk/service.php?NetSurfP-2.0 | (Klausen et al., 2019) |
I-TASSER | 3D structure prediction | https://zhanglab.ccmb.med.umich.edu/I-TASSER/ | (Yang & Zhang, 2015) |
PROCHECK, ERRAT, Verify-3D | 3D structure validation | http://services.mbi.ucla.edu/SAVES/ | (Colovos & Yeates, 1993; Laskowski et al., 1993; Eisenberg et al., 1997) |
Ramachandran | 3D structure validation | http://mordred.bioc.cam.ac.uk/_rapper/rampage.php | (Ramachandran et al., 1963) |
PDB2PQR server | Electrostatic potential evaluation | https://server.poissonboltzmann.org/ | (Dolinsky et al., 2004) |
PPM server | Membrane interaction evaluation | https://opm.phar.umich.edu/ppm_server | (Lomize et al., 2012) |
CELLPM Server | Membrane interaction evaluation | https://cellpm.org/cellpm_server | (Lomize & Pogozheva, 2018) |
CPPred-FL | CPP prediction | http://server.malab.cn/CPPred-FL/ | (Qiang et al., 2018) |
SkipCPP-Pred | CPP prediction | http://server.malab.cn/SkipCPP-Pred/Index.html | (Wei et al., 2017a) |
MLCPP | CPP prediction | http://www.thegleelab.org/MLCPP/ | (Manavalan et al., 2018) |
CPPred-RF | CPP prediction | http://server.malab.cn/CPPred-RF/ | (Wei et al., 2017b) |
CellPPD | CPP prediction | http://crdd.osdd.net/raghava/cellppd/ | (Gautam et al., 2013) |
Class I immunogenicity server | Immunogenicity prediction | http://tools.iedb.org/immunogenicity/ | (Calis et al., 2013) |
ProtLifePred server | Half-life prediction | http://protein-n-end-rule.leadhoster.com/ | (Bachmair et al., 1986) |