Coverage of Infectious Pathogens*| Classification | Genus | Species | # of structures
in PDB
at CSGID start | # of structures
in PDB | # of CSGID
structures | CSGID as %
of all entries | CSGID as %
of new entries |
|---|
| * "Number of Structures in PDB at CSGID start" denotes number of protein
structures for a given species deposited in the PDB before October 1, 2007. "Current number of structures
in PDB" denotes the number of structures deposited in the PDB as of May 22, 2012. For both PDB and CSGID only
the structures released as of May 22, 2012 are taken into account (thus structures that have been deposited but
are not yet released by the PDB are omitted). Assignment of species for PDB structures is based on
taxonomy id and scientific name provided by depositors; the assignment may be imprecise in cases where only
scientific name and no taxonomy id was given. | | Actinobacteria (class) | Bifidobacterium | Bifidobacterium longum | 8 | 27 | 2 | 7.4 | 10.5 | | Bacilli | Bacillus | Bacillus anthracis | 83 | 289 | 85 | 29.4 | 41.3 | | Bacilli | Enterococcus | Enterococcus faecalis | 108 | 181 | 3 | 1.7 | 4.1 | | Bacilli | Enterococcus | Enterococcus faecium | 23 | 31 | 5 | 16.1 | 62.5 | | Bacilli | Listeria | Listeria monocytogenes | 52 | 125 | 19 | 15.2 | 26.0 | | Bacilli | Staphylococcus | Staphylococcus aureus | 492 | 964 | 38 | 3.9 | 8.1 | | Chlamydiae | Chlamydia | Chlamydia trachomatis | 6 | 24 | 3 | 12.5 | 16.7 | | Clostridia | Clostridium | Clostridium difficile | 6 | 58 | 11 | 19.0 | 21.2 | | Clostridia | Clostridium | Clostridium perfringens | 37 | 100 | 2 | 2.0 | 3.2 | | Coccodia | Toxoplasma | Toxoplasma gondii | 44 | 109 | 3 | 2.8 | 4.6 | | Epsilonproteobacteria | Campylobacter | Campylobacter jejuni | 30 | 120 | 45 | 37.5 | 50.0 | | Gammaproteobacteria | Acinetobacter | Acinetobacter baumannii | 4 | 40 | 3 | 7.5 | 8.3 | | Gammaproteobacteria | Coxiella | Coxiella burnetii | 0 | 54 | 6 | 11.1 | 11.1 | | Gammaproteobacteria | Escherichia | Escherichia coli | 4335 | 6249 | 0 | 0.0 | 0.0 | | Gammaproteobacteria | Francisella | Francisella tularensis | 6 | 64 | 43 | 67.2 | 74.1 | | Gammaproteobacteria | Salmonella | Salmonella enterica | 394 | 600 | 57 | 9.5 | 27.7 | | Gammaproteobacteria | Shigella | Shigella flexneri | 38 | 96 | 4 | 4.2 | 6.9 | | Gammaproteobacteria | Vibrio | Vibrio cholerae | 103 | 249 | 64 | 25.7 | 43.8 | | Gammaproteobacteria | Yersinia | Yersinia pestis | 25 | 123 | 57 | 46.3 | 58.2 | | Viruses | Flavivirus | Dengue virus | 30 | 62 | 1 | 1.6 | 3.1 | | Viruses | Flavivirus | Japanese encephalitis virus | 2 | 3 | 1 | 33.3 | 100.0 | | Viruses | Influenzavirus A | Influenza A virus | 126 | 252 | 2 | 0.8 | 1.6 | | Viruses | Orthopoxvirus | Ectromelia virus | 3 | 9 | 1 | 11.1 | 16.7 | | Acinetobacter | Acinetobacter haemolyticus | 0 | 2 | 2 | 100.0 | 100.0 | | Bacteroides | Bacteroides thetaiotaomicron | 41 | 229 | 1 | 0.4 | 0.5 | | Pseudomonas | Pseudomonas aeruginosa | 435 | 809 | 2 | 0.2 | 0.5 | | Staphylococcus | Staphylococcus haemolyticus | 1 | 9 | 2 | 22.2 | 25.0 | | Streptococcus | Streptococcus pneumoniae | 160 | 328 | 4 | 1.2 | 2.4 | | Vibrio | Vibrio vulnificus | 8 | 28 | 6 | 21.4 | 30.0 |
| |
