ProDom-CG CG67

Release date = November 2002

 

Sequence and Family Data

  • Proteins used to build ProDom CG67:
    A subset of the proteins used to build ProDom 2002.1
  • 244011
    (49 % of ProDom)
  • Number of complete genomes
  • 67
  • domain families with at least 2 sequences
  • 77458
    (+55% since CG47)
  • domain families
  • 242181
    (+32 % since CG47)
  • PDB links
  • 6737
  • Prosite links (Patterns, Profiles and Prefiles)
  • 1388
  • Pfam-A links
  • 3568
  • InterPro links
  • 4067


    How is Prodom-CG built ?

    ProDom-CG (Complete Genome) is a version of the ProDom database which holds only data originating from the complete genome sequencing projects. This release was builded using the following process:

     

    About the AC numbers

    Because ProDom-CG was built from ProDom 2002.1, we could use an AC numbering scheme consistent with ProDom 2002.1:

    This enabled us to provide users of the Graphics User Interface with two more buttons:

    Complete genomes found in ProDom-CG67

    There are 12 archeal, 50 bacterial and 5 eukaryotic genomes in Prodom-CG.

    Type Organism TaxId Short name nb of seq
            CG17 CG20 CG42 CG47 CG67
    A Aeropyrium pernix K1 56636 AERPE     2695 2700 2702
    A Archaeoglobus fulgidus 2234 ARCFU 2407 2407 2396 2400 2400
    A Halobacterium sp. (strain NRC-1) 64091 HALN1     2370 2425 2425
    A Methanococcus jannaschii 2190 METJA 1770 1770 1773 1771 1773
    A Methanobacterium thermoautotrophicum. 145262 METTH 1869 1869 1869 1869 464
    A Pyrococcus abyssi 29292 PYRAB     1765 1762 1762
    A Pyrobaculum aerophilum. 13773 PYRAE         2595
    A Pyrococcus horikoshii 53953 PYRHO 2061 2061 2062 2066 2069
    A Sulfolobus solfataricus 2287 SULSO       2938 2938
    A Sulfolobus tokodaii 111955 SULTO         2818
    A Thermoplasma acidophilum 2303 THEAC     1478 1479 1479
    A Thermoplasma volcanium 50339 THEVO         1523
    B Agrobacterium tumefaciens (strain C58 / ATCC 33970) 176299 AGRT5         5391
    B Aquifex aeolicus 103690 ANASP         6069
    B Aquifex aeolicus 63363 AQUAE 1522 1522 1550 1549 1550
    B Bacillus halodurans 86665 BACHD     4066 3988 3987
    B Bacillus subtilis 1423 BACSU 4100 4100 4133 4119 4093
    B Borrelia burgdorferi 139 BORBU 1255 1255 1251 1247 1247
    B Brucella melitensis 29459 BRUME         3188
    B Buchnera aphidicola 118099 BUCAI     568 573 573
    B Campylobacter jejuni 197 CAMJE     1613 1607 1607
    B Caulobacter crescentus 69394 CAUCR       3717 3717
    B Chlamydia muridarum 83560 CHLMU     916 919 919
    B Chlamydia pneumoniae 83558 CHLPN   1052 1052 1052 1052
    B Chlamydia trachomatis 813 CHLTR 894 894 894 895 895
    B Clostridium acetobutylicum 1488 CLOAB         3836
    B Clostridium perfringens 1502 CLOPE         2722
    B Deinococcus radiodurans 1299 DEIRA     3084 3083 3083
    B Escherichia coli 562 ECOLI 4289 4289 4301 4301 4330
    B Escherichia coli, and Escherichia coli O157:H7 562, 83334 ECO57         5114
    B Haemophilus 727 HAEIN 1709 1709 1712 1707 1710
    B Helicobacter pylori J99 85963 HELPJ     1488 1486 1486
    B Helicobacter pylori 210 HELPY 1565 1565 1554 1548 1548
    B Lactococcus lactis (subsp. lactis) 1360 LACLA     2222 2224 2224
    B Listeria innocua 1642 LISIN         3016
    B Listeria monocytogenes 1639 LISMO         2843
    B Mycoplasma genitalium 2097 MYCGE 480 480 483 485 485
    B Mycobacterium leprae 1769 MYCLE     1555 1590 1592
    B Mycoplasma pneumoniae 2104 MYCPN 677 677 687 687 687
    B Mycoplasma pulmonis 2107 MYCPU       772 772
    B Mycobacterium tuberculosis 1773 MYCTU 3918 3918 3874 3847 3854
    B Neisseria meningitidis (serogroup A) 65699 NEIMA     2039 2006 2006
    B Neisseria meningitidis (serogroup B) 491 NEIMB     1967 1964 1965
    B Pasteurella multocida 747 PASMU     2010 2014 2014
    B Pseudomonas aeruginosa 287 PSEAE     5556 5553 5554
    B Rhizobium loti (Mesorhizobium loti) 381 RHILO       7255 7259
    B Rhizobium meliloti (Sinorhizobium meliloti) 382 RHIME         6132
    B Rickettsia conorii, and Rickettsia rickettsii 781, 783 RICCN         1374
    B Rickettsia prowazekii 782 RICPR   834 835 834 834
    B Salmonella typhi 601 SALTI         4683
    B Salmonella typhimurium 602 SALTY         4429
    B Staphylococcus aureus (strain Mu50 / ATCC 700699), and Staphylococcus aureus (strain N315) 158878, 158879 STAAM         2724
    B Staphylococcus aureus (strain N315), and Staphylococcus aureus. 158879, 1280 STAAN         2589
    B Streptococcus pneumoniae 1313 STRPN         2077
    B Streptococcus pyogenes 1314 STRPY       1688 1688
    B Synechocystis sp. (strain PCC 6803) 1148 SYNY3   3166 3143 3138 3140
    B Thermotoga maritima 2336 THEMA     1847 1852 1852
    B Treponema pallidum 160 TREPA 1031 1031 1030 1029 1029
    B Ureaplasma parvum 134821 UREPA     611 603 603
    B Vibrio cholerae 666 VIBCH     3784 3784 3784
    B Xylella fastidiosa 2371 XYLFA     2774 2772 2773
    B Yersinia pestis 632 YERPE         3853
    E Arabidopsis thaliana 3702 ARATH     28624 25306 25301
    E Caenorhabditis elegans 6239 CAEEL   16332 19810 17964 19804
    E Drosophila melanogaster 7227 DROME     16387 13600 13704
    E Mus musculus (Mouse) 10090 MOUSE         16214
    E Saccharomyces cerevisiae 4932 YEAST     6594 6081 6127

    Global statistics

    Distribution of the number of domains per sequence

    NOTE - The sequences with more than 50 domains are not shown.


    Distribution of the radius of gyration

    NOTES -

    1. The families with radius of gyration higher than 200 PAM are not shown
    2. Only families with at least 2 sequences are used here


    distribution of the diameter

    NOTES -

    1. The families with diameter higher than 500 PAM are not shown
    2. Only families with at least 2 sequences are used here