Antibody Design Platform Tools and Databases
| Resource Type |
Resource Name |
PMID |
Description |
| Database |
TABS |
n/a |
Database of therapeutic antibodies |
| PDB |
10592235 |
Database of protein structures |
| In house DB |
n/a |
Database of human ig sequences |
| OAS |
30217829 |
Compendium of ig sequences gathered from large ngs studies |
| SAbDab |
24214988 |
Antibody structures in pdb |
| SAbDab-Thera |
31555805 |
Database of antibody therapeutics |
| Andrew Martin’s Antibody Resources |
n/a |
Database of sequence- and structure-based bioinformatics tools |
| IMGT |
15608269 |
Database on genome, proteome, genetics and structure of ig, tcr and mhc |
| Abysis |
27561707 |
Database of sequence- and structure-based bioinformatics tools |
| Immune Epitope Database |
30357391 |
Database on antibody and t cell epitopes |
| Antibody Sequence Assessment |
Abnum |
18614234 |
Tool to number antibody vh and vl sequence |
| MUSCLE |
15034147 |
Tool for sequence alignment |
| CLUSTALW |
12824352 |
Tool for sequence alignment |
| Jalview |
19151095 |
Analysis and visualization of multiple sequence alignments |
| NetMHCIIpan |
32308001 |
Tool to predict binding sites of mhc ii molecules |
| Therapeutic Antibody Profiler |
30765520 |
In silico assessment of antibody developability |
| Humanness Score |
17442342 |
Assess the degree of “humanness” of antibodies |
| Parapred |
29672675 |
Sequence-based algorithm for paratope prediction |
| Geneious |
n/a |
Tool for phylogeny and sequence analysis |
| NetNGlyc – 1.0 |
n/a |
Tool to predict n-glycosylation sites in human proteins |
| Antibody Structural Assessment |
Swiss-model |
29788355 |
3d modeling of antibodies |
| PIGS |
25375991 |
3d modeling of antibodies |
| ABodyBuilder |
27392298 |
3d modeling of antibodies |
| PyMOL |
21053052 |
Molecular visualization and assessment |
| SWISS PDBViewer |
19517507 |
Integrated suite of tools for structural assessment of proteins |
| AbAngle |
23708320 |
Tool to compute relative orientation between the variable domains (vh and vl) |
| Protein-Protein Docking |
ZDOCK |
12784371 |
Protein-protein docking |
| HADDOCK |
12580598 |
Protein-protein docking |
| pyDockWeb |
23661696 |
Protein-protein docking |
| Network Analysis |
SIN server |
|
Tool to compute quantitative network scores of residues in a 3d protein structure |
| CDR Redesign |
AIF |
23569282 |
Distribution of pairwise contact in ag-ab interface |
| EPCN |
26189681 |
2d network of epitope-paratope contacts |
| Discovery Studio/CHARMM Energy Minimization |
n/a |
Integrated suite of tools for life sciences |
| RosettaAntibodyDesign |
29702641 |
Framework for ab initio design of antibodies |
| Literature/Patent |
PubMed |
12438481 |
Archive of biomedical and life sciences journal literature at NLM/NIH |
| USPTO |
n/a |
Patent database |
| EPO |
n/a |
Patent database |
