Coverage of Infectious Pathogens*

Stages of targets according to unified status codes

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 September 21, 2017. For both PDB and CSGID only the structures released as of September 21, 2017 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 40 2 5.0 6.2
Bacilli Bacillus Bacillus anthracis 81 403 147 36.5 45.7
Bacilli Enterococcus Enterococcus faecalis 104 221 6 2.7 5.1
Bacilli Enterococcus Enterococcus faecium 22 37 8 21.6 53.3
Bacilli Enterococcus Enterococcus gallinarum 0 6 4 66.7 66.7
Bacilli Listeria Listeria monocytogenes 52 228 58 25.4 33.0
Bacilli Staphylococcus Staphylococcus aureus 480 1271 67 5.3 8.5
Bacilli Staphylococcus Staphylococcus epidermidis 11 63 1 1.6 1.9
Bacilli Staphylococcus Staphylococcus haemolyticus 1 9 2 22.2 25.0
Bacilli Streptococcus Streptococcus agalactiae 17 67 2 3.0 4.0
Bacilli Streptococcus Streptococcus pneumoniae 156 443 21 4.7 7.3
Bacteroidia Bacteroides Bacteroides thetaiotaomicron 39 256 1 0.4 0.5
Betaproteobacteria Neisseria Neisseria meningitidis 66 203 3 1.5 2.2
Chlamydiae Chlamydia Chlamydia trachomatis 6 46 3 6.5 7.5
Clostridia Clostridium Clostridium difficile 6 120 24 20.0 21.1
Clostridia Clostridium Clostridium perfringens 36 166 10 6.0 7.7
Coccidia Cryptosporidium Cryptosporidium parvum 22 60 7 11.7 18.4
Coccodia Toxoplasma Toxoplasma gondii 44 146 19 13.0 18.6
Epsilonproteobacteria Campylobacter Campylobacter jejuni 30 198 61 30.8 36.3
Epsilonproteobacteria Helicobacter Helicobacter pylori 116 339 5 1.5 2.2
Gammaproteobacteria Acinetobacter Acinetobacter baumannii 4 94 12 12.8 13.3
Gammaproteobacteria Acinetobacter Acinetobacter haemolyticus 0 2 2 100.0 100.0
Gammaproteobacteria Coxiella Coxiella burnetii 0 62 10 16.1 16.1
Gammaproteobacteria Escherichia Escherichia coli 4046 6491 22 0.3 0.9
Gammaproteobacteria Francisella Francisella tularensis 6 109 63 57.8 61.2
Gammaproteobacteria Legionella Legionella pneumophila 13 119 4 3.4 3.8
Gammaproteobacteria Pseudomonas Pseudomonas aeruginosa 409 1065 7 0.7 1.1
Gammaproteobacteria Pseudomonas Pseudomonas fluorescens 72 153 1 0.7 1.2
Gammaproteobacteria Salmonella Salmonella enterica 383 825 74 9.0 16.7
Gammaproteobacteria Shigella Shigella flexneri 36 128 5 3.9 5.4
Gammaproteobacteria Vibrio Vibrio cholerae 102 446 100 22.4 29.1
Gammaproteobacteria Vibrio Vibrio parahaemolyticus 20 79 3 3.8 5.1
Gammaproteobacteria Vibrio Vibrio vulnificus 7 46 17 37.0 43.6
Gammaproteobacteria Yersinia Yersinia enterocolitica 32 66 5 7.6 14.7
Gammaproteobacteria Yersinia Yersinia pestis 25 175 86 49.1 57.3
Mammalia Homo Homo sapiens 10908 23872 1 0.0 0.0
Spirochaetia Leptospira Leptospira interrogans 12 29 1 3.4 5.9
Viruses Ebolavirus Zaire ebolavirus 3 19 4 21.1 25.0
Viruses Flavivirus Dengue virus 30 87 6 6.9 10.5
Viruses Flavivirus Japanese encephalitis virus 2 7 1 14.3 20.0
Viruses Flavivirus West Nile virus 14 25 2 8.0 18.2
Viruses Influenzavirus A Influenza A virus 125 618 3 0.5 0.6
Viruses Japanese encephalitis virus group St. Louis encephalitis virus 0 1 1 100.0 100.0
Viruses Orthopoxvirus Cowpox virus 4 6 2 33.3 100.0
Viruses Orthopoxvirus Ectromelia virus 3 9 1 11.1 16.7
Viruses Orthopoxvirus Monkeypox virus 0 1 1 100.0 100.0
Viruses Vibrio phage Vibrio phage ICP1 0 1 1 100.0 100.0