UniProtKB/Swiss-Prot protein knowledgebase release 2018_09 statistics





1.  INTRODUCTION



Release 2018_09 of 10-Oct-18 of UniProtKB/Swiss-Prot contains 558590 sequence entries,

comprising 200544181 amino acids abstracted from 262369 references. 



468 sequences have been added since release 2018_08, the sequence data of

52 existing entries has been updated and the annotations of

335311 entries have been revised.



Number of fragments: 9161

Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 39968





Protein existence (PE):           entries     %



1: Evidence at protein level        99454   17.8%

2: Evidence at transcript level     57213   10.2%

3: Inferred from homology          386612   69.2%

4: Predicted                        13447    2.4%

5: Uncertain                         1864    0.3%



The growth of the database is summarized below.



   





2.  TAXONOMIC ORIGIN



   Total number of species represented in this release of UniProtKB/Swiss-Prot: 13674



   The first twenty species represent 120651 sequences:  21.6 % of the total

   number of entries.





   2.1 Table of the frequency of occurrence of species



        Species represented 1x: 5664

                            2x: 1953

                            3x: 1062

                            4x:  693

                            5x:  511

                            6x:  407

                            7x:  296

                            8x:  248

                            9x:  229

                           10x:  138

                       11- 20x:  748

                       21- 50x:  457

                       51-100x:  218

                         >100x: 1050





   2.2  Table of the most represented species



  ------  ---------  --------------------------------------------

  Number  Frequency  Species

  ------  ---------  --------------------------------------------

       1      20410  Homo sapiens (Human)

       2      17001  Mus musculus (Mouse)

       3      15814  Arabidopsis thaliana (Mouse-ear cress)

       4       8050  Rattus norvegicus (Rat)

       5       6721  Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

       6       6003  Bos taurus (Bovine)

       7       5141  Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)

       8       4477  Escherichia coli (strain K12)

       9       4188  Bacillus subtilis (strain 168)

      10       4139  Dictyostelium discoideum (Slime mold)

      11       4034  Caenorhabditis elegans

      12       3999  Oryza sativa subsp. japonica (Rice)

      13       3538  Drosophila melanogaster (Fruit fly)

      14       3443  Xenopus laevis (African clawed frog)

      15       3079  Danio rerio (Zebrafish) (Brachydanio rerio)

      16       2290  Gallus gallus (Chicken)

      17       2218  Pongo abelii (Sumatran orangutan) (Pongo pygmaeus abelii)

      18       2172  Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)

      19       2036  Escherichia coli O157:H7

      20       1898  Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)

      21       1795  Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

      22       1787  Methanocaldococcus jannaschii  

      23       1707  Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)

      24       1705  Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)

      25       1694  Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

      26       1683  Shigella flexneri

      27       1424  Sus scrofa (Pig)

      28       1347  Salmonella typhi

      29       1326  Pseudomonas aeruginosa 

      30       1244  Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97)

      31       1173  Macaca fascicularis (Crab-eating macaque) (Cynomolgus monkey)

      32       1064  Synechocystis sp. (strain PCC 6803 / Kazusa)

      33       1034  Archaeoglobus fulgidus 

      34       1022  Yersinia pestis

      35       1009  Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)

      36        975  Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)

      37        930  Salmonella paratyphi A (strain ATCC 9150 / SARB42)

      38        930  Staphylococcus aureus (strain Mu50 / ATCC 700699)

      39        927  Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056)  

      40        926  Staphylococcus aureus (strain N315)

      41        914  Kluyveromyces lactis   

      42        914  Emericella nidulans  

      43        909  Acanthamoeba polyphaga mimivirus (APMV)

      44        899  Staphylococcus aureus (strain COL)

      45        895  Staphylococcus aureus (strain MW2)

      46        893  Oryctolagus cuniculus (Rabbit)

      47        892  Escherichia coli O6:K15:H31 (strain 536 / UPEC)

      48        889  Staphylococcus aureus (strain MSSA476)

      49        888  Staphylococcus aureus (strain MRSA252)

      50        882  Rhizobium meliloti (strain 1021) (Ensifer meliloti) (Sinorhizobium meliloti)

      51        882  Salmonella choleraesuis (strain SC-B67)

      52        879  Shigella sonnei (strain Ss046)

      53        878  Candida glabrata   

      54        863  Yersinia pseudotuberculosis serotype I (strain IP32953)

      55        855  Neurospora crassa 

      56        841  Escherichia coli O9:H4 (strain HS)

      57        834  Escherichia coli O139:H28 (strain E24377A / ETEC)

      58        829  Shigella boydii serotype 4 (strain Sb227)

      59        825  Escherichia coli (strain UTI89 / UPEC)

      60        823  Oryza sativa subsp. indica (Rice)

      61        822  Shigella dysenteriae serotype 1 (strain Sd197)

      62        821  Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) 

      63        819  Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks)

      64        819  Canis lupus familiaris (Dog) (Canis familiaris)

      65        806  Zea mays (Maize)

      66        796  Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672) 

      67        793  Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)

      68        792  Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)

      69        791  Escherichia coli (strain SMS-3-5 / SECEC)

      70        784  Aquifex aeolicus (strain VF5)

      71        776  Pasteurella multocida (strain Pm70)

      72        771  Escherichia coli O127:H6 (strain E2348/69 / EPEC)

      73        771  Escherichia coli (strain K12 / DH10B)

      74        766  Staphylococcus aureus (strain NCTC 8325)

      75        765  Escherichia coli (strain K12 / MC4100 / BW2952)

      76        765  Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC)

      77        762  Escherichia coli (strain 55989 / EAEC)

      78        761  Escherichia coli O8 (strain IAI1)

      79        760  Staphylococcus epidermidis (strain ATCC 35984 / RP62A)

      80        760  Shigella flexneri serotype 5b (strain 8401)

      81        759  Staphylococcus epidermidis (strain ATCC 12228)

      82        756  Escherichia coli O45:K1 (strain S88 / ExPEC)

      83        756  Escherichia coli (strain SE11)

      84        753  Escherichia coli O7:K1 (strain IAI39 / ExPEC)

      85        751  Bacillus anthracis

      86        748  Escherichia coli O157:H7 (strain EC4115 / EHEC)

      87        746  Photorhabdus luminescens subsp. laumondii (strain DSM 15139 / CIP 105565 / TT01)

      88        741  Bacillus halodurans 

      89        737  Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 8081)

      90        733  Vibrio vulnificus (strain CMCP6)

      91        731  Escherichia coli O81 (strain ED1a)

      92        722  Salmonella enteritidis PT4 (strain P125109)

      93        718  Vibrio vulnificus (strain YJ016)

      94        718  Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)

      95        716  Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7)

      96        715  Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)

      97        715  Yersinia pestis bv. Antiqua (strain Nepal516)

      98        715  Enterobacter sp. (strain 638)

      99        714  Escherichia coli O1:K1 / APEC

     100        714  Salmonella paratyphi A (strain AKU_12601)

     101        713  Salmonella agona (strain SL483)

     102        713  Yersinia pseudotuberculosis serotype O:1b (strain IP 31758)

     103        713  Salmonella newport (strain SL254)

     104        712  Salmonella schwarzengrund (strain CVM19633)

     105        711  Yersinia pestis bv. Antiqua (strain Antiqua)

     106        710  Salmonella heidelberg (strain SL476)

     107        702  Salmonella dublin (strain CT_02021853)

     108        698  Klebsiella pneumoniae (strain 342)

     109        698  Shigella boydii serotype 18 (strain CDC 3083-94 / BS512)

     110        695  Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73)

     111        693  Pan troglodytes (Chimpanzee)

     112        692  Nostoc sp. (strain PCC 7120 / SAG 25.82 / UTEX 2576)

     113        687  Mycoplasma pneumoniae (strain ATCC 29342 / M129)

     114        684  Salmonella gallinarum (strain 287/91 / NCTC 13346)

     115        680  Pseudomonas syringae pv. tomato (strain ATCC BAA-871 / DC3000)

     116        678  Citrobacter koseri (strain ATCC BAA-895 / CDC 4225-83 / SGSC4696)

     117        673  Escherichia coli

     118        673  Staphylococcus aureus (strain USA300)

     119        670  Serratia proteamaculans (strain 568)

     120        669  Mycobacterium leprae (strain TN)

     121        667  Yersinia pestis (strain Pestoides F)

     122        665  Bacillus cereus 

     123        664  Yarrowia lipolytica (strain CLIB 122 / E 150) (Yeast) (Candida lipolytica)

     124        664  Bradyrhizobium diazoefficiens 

     125        658  Sinorhizobium fredii (strain NBRC 101917 / NGR234)

     126        653  Debaryomyces hansenii   

     127        646  Agrobacterium fabrum (strain C58 / ATCC 33970) (Agrobacterium tumefaciens 

     128        645  Shewanella oneidensis (strain MR-1)

     129        643  Staphylococcus aureus (strain bovine RF122 / ET3-1)

     130        642  Salmonella arizonae (strain ATCC BAA-731 / CDC346-86 / RSK2980)

     131        638  Yersinia pseudotuberculosis serotype O:3 (strain YPIII)

     132        634  Yersinia pseudotuberculosis serotype IB (strain PB1/+)

     133        622  Treponema pallidum (strain Nichols)

     134        622  Cronobacter sakazakii (strain ATCC BAA-894) (Enterobacter sakazakii)

     135        620  Methanothermobacter thermautotrophicus  

     136        614  Staphylococcus haemolyticus (strain JCSC1435)

     137        611  Mesorhizobium japonicum  (Mesorhizobium loti 

     138        610  Xanthomonas campestris pv. campestris 

     139        608  Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)

     140        603  Ralstonia solanacearum (strain GMI1000) (Pseudomonas solanacearum)

     141        603  Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)

     142        602  Staphylococcus saprophyticus subsp. saprophyticus 

     143        602  Photobacterium profundum (strain SS9)

     144        601  Salmonella paratyphi C (strain RKS4594)

     145        600  Yersinia pestis bv. Antiqua (strain Angola)

     146        594  Pseudomonas aeruginosa (strain UCBPP-PA14)

     147        594  Bacillus cereus (strain ATCC 10987 / NRS 248)

     148        594  Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)

     149        591  Pectobacterium carotovorum subsp. carotovorum (strain PC1)

     150        586  Rickettsia prowazekii (strain Madrid E)

     151        582  Neisseria meningitidis serogroup B (strain MC58)

     152        580  Caenorhabditis briggsae

     153        579  Brucella suis biovar 1 (strain 1330)

     154        574  Brucella melitensis biotype 1 (strain 16M / ATCC 23456 / NCTC 10094)

     155        573  Aliivibrio fischeri (strain ATCC 700601 / ES114) (Vibrio fischeri)

     156        572  Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) 

     157        571  Caulobacter vibrioides (strain ATCC 19089 / CB15) (Caulobacter crescentus)

     158        569  Bacillus thuringiensis subsp. konkukian (strain 97-27)

     159        568  Helicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99)

     160        567  Pseudomonas syringae pv. syringae (strain B728a)

     161        564  Bacillus licheniformis 

     162        562  Bacillus cereus (strain ZK / E33L)

     163        562  Buchnera aphidicola subsp. Schizaphis graminum (strain Sg)

     164        559  Clostridium acetobutylicum 

     165        557  Xanthomonas axonopodis pv. citri (strain 306)

     166        555  Pseudomonas fluorescens (strain Pf0-1)

     167        555  Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)

     168        554  Neisseria meningitidis serogroup A / serotype 4A (strain Z2491)

     169        553  Oceanobacillus iheyensis 

     170        551  Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)

     171        550  Pseudomonas fluorescens (strain ATCC BAA-477 / NRRL B-23932 / Pf-5)

     172        547  Pseudomonas savastanoi pv. phaseolicola  (Pseudomonas syringae pv. phaseolicola 

     173        537  Lactococcus lactis subsp. lactis (strain IL1403) (Streptococcus lactis)

     174        531  Erwinia tasmaniensis (strain DSM 17950 / CIP 109463 / Et1/99)

     175        529  Listeria monocytogenes serotype 4b (strain F2365)

     176        529  Corynebacterium glutamicum 

     177        529  Sodalis glossinidius (strain morsitans)

     178        527  Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50) 

     179        522  Xylella fastidiosa (strain 9a5c)

     180        520  Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)

     181        517  Chromobacterium violaceum 

     182        516  Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251)

     183        515  Xylella fastidiosa (strain Temecula1 / ATCC 700964)

     184        514  Aspergillus oryzae (strain ATCC 42149 / RIB 40) (Yellow koji mold)

     185        513  Deinococcus radiodurans 

     186        513  Staphylococcus aureus (strain Newman)

     187        512  Pseudomonas aeruginosa (strain PA7)

     188        511  Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 / JCM 12185 / C2A)

     189        510  Haemophilus ducreyi (strain 35000HP / ATCC 700724)

     190        510  Geobacillus kaustophilus (strain HTA426)

     191        508  Streptomyces avermitilis 

     192        508  Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253)

     193        507  Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp)

     194        502  Pseudomonas entomophila (strain L48)

     195        501  Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)

     196        501  Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)

     197        499  Brucella abortus biovar 1 (strain 9-941)

     198        498  Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1)

     199        497  Haemophilus influenzae (strain 86-028NP)

     200        497  Rickettsia conorii (strain ATCC VR-613 / Malish 7)

     201        496  Bacillus clausii (strain KSM-K16)

     202        496  Burkholderia pseudomallei (strain K96243)

     203        494  Proteus mirabilis (strain HI4320)

     204        493  Xanthomonas campestris pv. campestris (strain 8004)

     205        492  Bacillus velezensis (strain DSM 23117 / BGSC 10A6 / FZB42) 

     206        491  Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1) 

     207        490  Vibrio campbellii (strain ATCC BAA-1116 / BB120)

     208        488  Methanosarcina mazei  

     209        487  Shewanella sp. (strain MR-7)

     210        487  Pyrococcus horikoshii 

     211        486  Mannheimia succiniciproducens (strain MBEL55E)

     212        485  Thermosynechococcus elongatus (strain BP-1)

     213        484  Staphylococcus aureus (strain Mu3 / ATCC 700698)

     214        484  Shewanella sp. (strain MR-4)

     215        484  Pseudomonas aeruginosa (strain LESB58)

     216        483  Brucella abortus (strain 2308)

     217        483  Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195)

     218        480  Synechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)

     219        479  Streptococcus pneumoniae (strain ATCC BAA-255 / R6)

     220        478  Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)

     221        478  Pseudomonas putida (strain ATCC 700007 / DSM 6899 / BCRC 17059 / F1)

     222        477  Pyrococcus abyssi (strain GE5 / Orsay)

     223        475  Nicotiana tabacum (Common tobacco)

     224        475  Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337) 

     225        475  Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)

     226        474  Burkholderia lata 

     227        472  Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)

     228        468  Clostridium perfringens (strain 13 / Type A)

     229        467  Shewanella frigidimarina (strain NCIMB 400)

     230        467  Campylobacter jejuni subsp. jejuni serotype O:2 

     231        466  Pseudomonas putida (strain GB-1)

     232        466  Xanthomonas campestris pv. vesicatoria (strain 85-10)

     233        466  Rhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)

     234        466  Shewanella sp. (strain ANA-3)

     235        465  Anabaena variabilis (strain ATCC 29413 / PCC 7937)

     236        464  Aeromonas hydrophila subsp. hydrophila 

     237        463  Enterococcus faecalis (strain ATCC 700802 / V583)

     238        462  Burkholderia mallei (strain ATCC 23344)

     239        459  Cupriavidus necator (strain JMP 134 / LMG 1197) (Ralstonia eutropha 

     240        458  Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath)

     241        457  Rickettsia felis (strain ATCC VR-1525 / URRWXCal2) (Rickettsia azadi)

     242        457  Ovis aries (Sheep)

     243        455  Staphylococcus aureus (strain JH1)

     244        454  Xanthomonas oryzae pv. oryzae (strain MAFF 311018)

     245        453  Pseudomonas putida (strain W619)

     246        452  Aeromonas salmonicida (strain A449)

     247        452  Shewanella baltica (strain OS185)

     248        452  Streptococcus mutans serotype c (strain ATCC 700610 / UA159)

     249        450  Caldanaerobacter subterraneus subsp. tengcongensis  

     250        450  Mycobacterium paratuberculosis (strain ATCC BAA-968 / K-10)





   

   2.3  Taxonomic distribution of the sequences



   



   Kingdom        sequences (% of the database)

    Archaea           19544 (  3%)

    Bacteria         333708 ( 60%)

    Eukaryota        188529 ( 34%)

    Viruses           16809 (  3%)





   Within Eukaryota:



   



    Category            sequences (% of Eukaryota) (% of the complete database)

     Human                  20411 ( 11%)           (  4%)

     Other Mammalia         46680 ( 25%)           (  8%)

     Other Vertebrata       18334 ( 10%)           (  3%)

     Viridiplantae          39669 ( 21%)           (  7%)

     Fungi                  33712 ( 18%)           (  6%)

     Insecta                 9210 (  5%)           (  2%)

     Nematoda                4936 (  3%)           (  1%)

     Other                  15577 (  8%)           (  3%)







3.  SEQUENCE SIZE



   Repartition of the sequences by size (excluding fragments)



               From   To  Number             From   To   Number

                  1-  50    9576             1001-1100     3984

                 51- 100   42544             1101-1200     2798

                101- 150   58994             1201-1300     2143

                151- 200   58869             1301-1400     2001

                201- 250   57712             1401-1500     1621

                251- 300   51434             1501-1600      792

                301- 350   51808             1601-1700      616

                351- 400   44951             1701-1800      552

                401- 450   36940             1801-1900      470

                451- 500   29770             1901-2000      375

                501- 550   21491             2001-2100      248

                551- 600   15332             2101-2200      326

                601- 650   12796             2201-2300      313

                651- 700    9215             2301-2400      210

                701- 750    7649             2401-2500      159

                751- 800    5520             >2500         1278

                801- 850    4769

                851- 900    5205

                901- 950    4049

                951-1000    2919



   





   The average sequence length in UniProtKB/Swiss-Prot is 359 amino acids.



   The shortest sequence is   GWA_SEPOF (P83570):     2 amino acids.

   The longest sequence is  TITIN_MOUSE (A2ASS6): 35213 amino acids.





4.  JOURNAL CITATIONS



   Note: the following citation statistics reflect the number of distinct

         journal citations.



   Total number of journals cited in this release of UniProtKB/Swiss-Prot: 2750





   4.1 Table of the frequency of journal citations



        Journals cited 1x:  866

                       2x:  389

                       3x:  162

                       4x:  137

                       5x:  110

                       6x:   98

                       7x:   68

                       8x:   56

                       9x:   37

                      10x:   34

                  11- 20x:  220

                  21- 50x:  224

                  51-100x:  119

                    >100x:  230





   4.2  List of the most cited journals in UniProtKB/Swiss-Prot



   Nb    Citations   Journal name

   --    ---------   -------------------------------------------------------------

    1        24411   Journal of Biological Chemistry

    2        11304   Proceedings of the National Academy of Sciences of the U.S.A.

    3         6601   Journal of Bacteriology

    4         5612   Biochemical and Biophysical Research Communications

    5         5304   Biochemistry

    6         4982   Nucleic Acids Research

    7         4816   FEBS Letters

    8         4805   Gene

    9         4674   The EMBO Journal

   10         4496   Nature

   11         4332   Molecular and Cellular Biology

   12         4244   Journal of Molecular Biology

   13         3614   Biochimica et Biophysica Acta

   14         3544   Cell

   15         3391   European Journal of Biochemistry

   16         3198   Journal of Virology

   17         2987   Science

   18         2841   Biochemical Journal

   19         2539   Plant Physiology

   20         2534   Genomics

   21         2513   Molecular Microbiology

   22         2183   Journal of Cell Biology

   23         2125   The American Journal of Human Genetics

   24         1978   The Plant Cell

   25         1869   PLoS ONE

   26         1850   Plant Molecular Biology

   27         1832   Genes and Development

   28         1817   The Plant Journal

   29         1794   Human Molecular Genetics

   30         1767   Virology

   31         1742   Nature Genetics

   32         1659   Development

   33         1655   Molecular Biology of the Cell

   34         1565   Human Mutation

   35         1539   Oncogene

   36         1526   Molecular Cell

   37         1416   Journal of Immunology

   38         1394   Molecular and General Genetics

   39         1333   Journal of Biochemistry

   40         1325   Structure

   41         1310   Genetics

   42         1238   Journal of Cell Science

   43         1143   Blood

   44         1131   Journal of General Virology

   45         1106   Infection and Immunity

   46         1051   Microbiology

   47         1043   Developmental Biology

   48         1042   Current Biology

   49         1041   Archives of Biochemistry and Biophysics

   50          899   Applied and Environmental Microbiology

   51          884   Journal of Neuroscience

   52          882   Cancer Research

   53          871   Acta Crystallographica, Section D

   54          838   Yeast

   55          836   FEMS Microbiology Letters

   56          769   Protein Science

   57          766   Toxicon

   58          737   Neuron

   59          719   Journal of Clinical Investigation

   60          688   Human Genetics

   61          672   American Journal of Physiology

   62          667   Plant and Cell Physiology

   63          647   Mechanisms of Development

   64          645   Nature Structural Biology

   65          627   PLoS Genetics

   66          626   The Journal of Experimental Medicine

   67          614   Proteins

   68          599   Journal of Medical Genetics

   69          574   Current Genetics

   70          568   Nature Cell Biology

   71          549   Bioscience, Biotechnology, and Biochemistry

   72          532   Molecular Endocrinology

   73          530   Journal of Neurochemistry

   74          526   Nature Structural and Molecular Biology

   75          517   The Journal of Clinical Endocrinology and Metabolism

   76          505   Developmental Cell

   77          502   Endocrinology

   78          501   The FEBS Journal

   79          488   Mammalian Genome

   80          472   Immunogenetics

   81          464   Antimicrobial Agents and Chemotherapy

   82          455   Experimental Cell Research

   83          448   Molecular and Biochemical Parasitology

   84          431   Eukaryotic Cell

   85          422   Planta

   86          416   RNA

   87          410   Peptides

   88          407   Journal of Molecular Evolution

   89          397   Molecular Biology and Evolution

   90          386   DNA and Cell Biology

   91          384   Nature Communications

   92          374   Journal of Experimental Botany

   93          374   DNA Sequence

   94          372   Journal of the American Chemical Society

   95          372   Molecular Pharmacology

   96          359   EMBO Reports

   97          358   Neurology

   98          357   Journal of Investigative Dermatology

   99          353   PLoS Pathogens

  100          350   The FASEB Journal

  101          349   Comparative Biochemistry and Physiology

  102          347   Biology of Reproduction

  103          343   Acta Crystallographica, Section F

  104          339   Brain Research. Molecular Brain Research

  105          339   Molecular Plant-Microbe Interactions

  106          334   American Journal of Medical Genetics. Part A

  107          331   European Journal of Human Genetics

  108          326   Tissue Antigens

  109          323   Immunity

  110          317   Biochimie

  111          316   Genes to Cells

  112          315   Scientific Reports

  113          315   The New England Journal of Medicine

  114          312   Virus Research

  115          311   Developmental Dynamics

  116          296   Biological Chemistry Hoppe-Seyler

  117          296   Genome Research

  118          292   Clinical Genetics

  119          286   Annals of Neurology

  120          282   Cytogenetics and Cell Genetics

  121          271   Journal of General Microbiology

  122          270   European Journal of Immunology

  123          269   BMC Genomics

  124          265   Nature Immunology

  125          265   Investigative Ophthalmology and Visual Science

  126          259   Applied Microbiology and Biotechnology

  127          253   Journal of Human Genetics

  128          246   Journal of Medicinal Chemistry

  129          244   PLoS Biology

  130          240   Archives of Microbiology

  131          231   Glycobiology

  132          231   DNA Research

  133          229   Journal of Cellular Biochemistry

  134          223   Traffic

  135          219   Cell Cycle

  136          218   Hoppe-Seyler's Zeitschrift fur Physiologische Chemie

  137          218   Molecular Genetics and Metabolism

  138          216   Journal of Lipid Research

  139          215   Circulation Research

  140          212   Molecular Immunology

  141          209   Archives of Virology

  142          208   Diabetes

  143          207   Molecular and Cellular Endocrinology

  144          204   Protein Expression and Purification

  145          202   Phytochemistry

  146          198   Fungal Genetics and Biology

  147          196   Nature Medicine

  148          196   Molecular Genetics and Genomics

  149          185   Cell Reports

  150          183   Insect Biochemistry and Molecular Biology





5.  STATISTICS FOR SOME LINE TYPES



The following table summarizes the total number of some UniProtKB/Swiss-Prot lines,

as well as the number of entries with at least one such line, and the

frequency of the lines.



                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry

------------------------------------  -------- ---------  ---------



References (RL)                      1215846                 2.18                                         

   Journal                           1038510     454345      1.86       1                                 

   Submitted to EMBL/GenBank/DDBJ     166540     150910      0.30       2                                 

   Submitted to other databases         7374       6809      0.01       3                                 

   Book citation                        1757       1734     <0.01       4                                 

   Plant Gene Register                   611        598     <0.01       5                                 

   Thesis                                433        430     <0.01       6                                 

   Unpublished observations              408        404     <0.01       7                                 

   Patent                                207        202     <0.01       8                                 

   Worm Breeder's Gazette                  6          6     <0.01       9                                 



Total number of distinct authors cited in UniProtKB/Swiss-Prot: 405296



                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

------------------------------------  -------- ---------  ---------  ----

Comments (CC)                        2511754                 4.50                                         

   ACTIVITY REGULATION                 14691      14691      0.03      16                                 

   ALLERGEN                              722        722     <0.01      26                                 

   ALTERNATIVE PRODUCTS                25230      25230      0.05      13                                 

   BIOPHYSICOCHEMICAL PROPERTIES        8137       8137      0.01      20                                 

   BIOTECHNOLOGY                         941        927     <0.01      25                                 

   CATALYTIC ACTIVITY                 267532     235907      0.48       5                                 

   CAUTION                             12810      12573      0.02      18                                 

   COFACTOR                           122995     112607      0.22       7                                 

   DEVELOPMENTAL STAGE                 12056      12055      0.02      19                                 

   DISEASE                              6953       4662      0.01      21                                 

   DISRUPTION PHENOTYPE                14053      14052      0.03      17                                 

   DOMAIN                              48482      41759      0.09       9                                 

   FUNCTION                           465052     444653      0.83       2                                 

   INDUCTION                           20769      20757      0.04      14                                 

   INTERACTION                         19107      19107      0.03      15                                 

   MASS SPECTROMETRY                    6916       5210      0.01      23                                 

   MISCELLANEOUS                       38426      35383      0.07      12                                 

   PATHWAY                            137937     125135      0.25       6                                 

   PHARMACEUTICAL                        114        111     <0.01      29                                 

   POLYMORPHISM                         1306       1250     <0.01      24                                 

   PTM                                 56066      41571      0.10       8                                 

   RNA EDITING                           627        627     <0.01      28                                 

   SEQUENCE CAUTION                    44000      44000      0.08      11                                 

   SIMILARITY                         507302     503155      0.91       1                                 

   SUBCELLULAR LOCATION               348405     341139      0.62       3                                 

   SUBUNIT                            277937     277160      0.50       4                                 

   TISSUE SPECIFICITY                  45578      45577      0.08      10                                 

   TOXIC DOSE                            666        609     <0.01      27                                 

   WEB RESOURCE                         6944       5784      0.01      22                                 



Total number of comment topics: 29





                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

------------------------------------  -------- ---------  ---------  ----

Features (FT)                        4471332                 8.00                                         

   ACT_SITE                           163498      99216      0.29      10                                 

   BINDING                            404030     106386      0.72       2                                 

   CA_BIND                              4176       1729      0.01      36                                 

   CARBOHYD                           115705      29742      0.21      15                                 

   CHAIN                              566390     551519      1.01       1                                 

   COILED                              21994      15214      0.04      27                                 

   COMPBIAS                            58977      31734      0.11      20                                 

   CONFLICT                           135082      47305      0.24      13                                 

   CROSSLNK                            23537       8448      0.04      26                                 

   DISULFID                           124543      33619      0.22      14                                 

   DNA_BIND                            11630      10522      0.02      32                                 

   DOMAIN                             194182     119695      0.35       9                                 

   HELIX                              251288      23297      0.45       6                                 

   INIT_MET                            17150      17150      0.03      28                                 

   INTRAMEM                             2651       1198     <0.01      37                                 

   LIPID                               13007       8398      0.02      30                                 

   METAL                              378771      93983      0.68       3                                 

   MOD_RES                            248386      71777      0.44       7                                 

   MOTIF                               42868      28010      0.08      23                                 

   MUTAGEN                             68958      15173      0.12      18                                 

   NON_CONS                             2257        787     <0.01      38                                 

   NON_STD                               357        282     <0.01      39                                 

   NON_TER                             12397       9511      0.02      31                                 

   NP_BIND                            156662      85141      0.28      11                                 

   PEPTIDE                             11566       7965      0.02      33                                 

   PROPEP                              14198      12108      0.03      29                                 

   REGION                             197131      93402      0.35       8                                 

   REPEAT                             105360      14727      0.19      16                                 

   SIGNAL                              41607      41605      0.07      24                                 

   SITE                                57166      31702      0.10      21                                 

   STRAND                             262002      21922      0.47       5                                 

   TOPO_DOM                           140221      28747      0.25      12                                 

   TRANSIT                              9085       8969      0.02      34                                 

   TRANSMEM                           370417      77289      0.66       4                                 

   TURN                                60539      18880      0.11      19                                 

   UNSURE                               4455        797      0.01      35                                 

   VAR_SEQ                             51949      21996      0.09      22                                 

   VARIANT                             96651      17071      0.17      17                                 

   ZN_FING                             30489      13398      0.05      25                                 



Total number of feature keys: 39







                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank      Category

------------------------------------  -------- ---------  ---------  ----      -------------------------------------------

Cross-references (DR)               18848749                33.74                                                           

   Allergome                            1757       1148     <0.01     121      Protein family/group databases               

   ArachnoServer                        1145       1136     <0.01     130      Organism-specific databases                  

   Araport                             15835      15739      0.03      83      Organism-specific databases                  

   Bgee                                56433      56433      0.10      45      Gene expression databases                    

   BindingDB                            4999       4999      0.01     104      Chemistry                                    

   BioCyc                             158119     154054      0.28      29      Enzyme and pathway databases                 

   BioGrid                             50875      50375      0.09      50      Protein-protein interaction databases        

   BioMuta                             17236      17227      0.03      79      Polymorphism and mutation databases          

   BRENDA                              12908      12134      0.02      87      Enzyme and pathway databases                 

   CarbonylDB                           1157       1157     <0.01     128      PTM databases                                

   CAZy                                 9482       8547      0.02      90      Protein family/group databases               

   CCDS                                48096      34096      0.09      52      Sequence databases                           

   CDD                                184485     168568      0.33      26      Family and domain databases                  

   CGD                                  1997       1980     <0.01     118      Organism-specific databases                  

   ChEMBL                               6867       6867      0.01      94      Chemistry                                    

   ChiTaRS                             20474      20463      0.04      69      Other                                        

   CleanEx                             30014      29383      0.05      59      Gene expression databases                    

   CollecTF                              133        133     <0.01     152      Gene expression databases                    

   ComplexPortal                        8435       4415      0.02      91      Protein-protein interaction databases        

   COMPLUYEAST-2DPAGE                     97         97     <0.01     153      2D gel databases                             

   ConoServer                            951        868     <0.01     131      Organism-specific databases                  

   CORUM                                5168       5168      0.01     101      Protein-protein interaction databases        

   CTD                                 74911      74030      0.13      43      Organism-specific databases                  

   DEPOD                                 239        239     <0.01     148      PTM databases                                

   dictyBase                            4215       4100      0.01     108      Organism-specific databases                  

   DIP                                 17349      17317      0.03      77      Protein-protein interaction databases        

   DisGeNET                            14841      14607      0.03      84      Organism-specific databases                  

   DisProt                               708        703     <0.01     135      3D structure databases                       

   DMDM                                16280      16280      0.03      82      Polymorphism and mutation databases          

   DNASU                               18993      18926      0.03      73      Protocols and materials databases            

   DOSAC-COBS-2DPAGE                     145        145     <0.01     150      2D gel databases                             

   DrugBank                            18747       3637      0.03      74      Chemistry                                    

   EchoBASE                             4159       4159      0.01     109      Organism-specific databases                  

   EcoGene                              4293       4293      0.01     107      Organism-specific databases                  

   eggNOG                             664679     331625      1.19       5      Phylogenomic databases                       

   ELM                                  1811       1811     <0.01     120      Protein-protein interaction databases        

   EMBL                               983858     546874      1.76       3      Sequence databases                           

   Ensembl                             90199      50311      0.16      41      Genome annotation databases                  

   EnsemblBacteria                    354628     335501      0.63      17      Genome annotation databases                  

   EnsemblFungi                        30821      28977      0.06      58      Genome annotation databases                  

   EnsemblMetazoa                      17312      10139      0.03      78      Genome annotation databases                  

   EnsemblPlants                       27396      20449      0.05      63      Genome annotation databases                  

   EnsemblProtists                      5014       4830      0.01     103      Genome annotation databases                  

   EPD                                 21825      21825      0.04      66      Proteomic databases                          

   ESTHER                               2503       2503     <0.01     116      Protein family/group databases               

   euHCVdb                                55         44     <0.01     154      Organism-specific databases                  

   EuPathDB                            37952      37758      0.07      55      Organism-specific databases                  

   EvolutionaryTrace                   16626      16626      0.03      81      Other                                        

   ExpressionAtlas                     51714      51714      0.09      48      Gene expression databases                    

   FlyBase                              6166       5870      0.01      97      Organism-specific databases                  

   Gene3D                             365944     292564      0.66      16      Family and domain databases                  

   GeneCards                           20338      20171      0.04      71      Organism-specific databases                  

   GeneDB                                575        519     <0.01     139      Genome annotation databases                  

   GeneID                             290388     280087      0.52      22      Genome annotation databases                  

   GeneReviews                          1154       1151     <0.01     129      Organism-specific databases                  

   GeneTree                            59353      59329      0.11      44      Phylogenomic databases                       

   Genevisible                         55235      55235      0.10      46      Gene expression databases                    

   GeneWiki                            10356      10273      0.02      89      Other                                        

   GenomeRNAi                          22041      22041      0.04      65      Other                                        

   GlyConnect                           1437       1353     <0.01     122      PTM databases                                

   GO                                2896974     532310      5.19       1      Ontologies                                   

   Gramene                             27396      20449      0.05      64      Genome annotation databases                  

   GuidetoPHARMACOLOGY                  1948       1948     <0.01     119      Chemistry                                    

   H-InvDB                              5628       4802      0.01     100      Organism-specific databases                  

   HAMAP                              329828     326952      0.59      19      Family and domain databases                  

   HGNC                                20349      20209      0.04      70      Organism-specific databases                  

   HOGENOM                            391685     391685      0.70      15      Phylogenomic databases                       

   HOVERGEN                            76119      76119      0.14      42      Phylogenomic databases                       

   HPA                                 27402      16829      0.05      62      Organism-specific databases                  

   IMGT_GENE-DB                          142        142     <0.01     151      Protein family/group databases               

   InParanoid                         139547     139547      0.25      30      Phylogenomic databases                       

   IntAct                              52710      52710      0.09      47      Protein-protein interaction databases        

   InterPro                          2235115     539798      4.00       2      Family and domain databases                  

   iPTMnet                             51307      51307      0.09      49      PTM databases                                

   KEGG                               502715     475354      0.90       7      Genome annotation databases                  

   KO                                 405013     404569      0.73      14      Phylogenomic databases                       

   LegioList                             765        763     <0.01     134      Organism-specific databases                  

   Leproma                               672        669     <0.01     136      Organism-specific databases                  

   MaizeGDB                              509        505     <0.01     140      Organism-specific databases                  

   MalaCards                            4438       4435      0.01     106      Organism-specific databases                  

   MaxQB                               29710      29710      0.05      60      Proteomic databases                          

   MEROPS                              11396      11396      0.02      88      Protein family/group databases               

   MGI                                 16905      16865      0.03      80      Organism-specific databases                  

   MIM                                 20985      15059      0.04      68      Organism-specific databases                  

   MINT                                21794      21794      0.04      67      Protein-protein interaction databases        

   MoonDB                                348        348     <0.01     146      Protein family/group databases               

   MoonProt                              279        279     <0.01     147      Protein family/group databases               

   mycoCLAP                              355        352     <0.01     145      Protein family/group databases               

   neXtProt                            20181      20178      0.04      72      Organism-specific databases                  

   OGP                                   373        373     <0.01     144      2D gel databases                             

   OMA                                416791     416791      0.75      13      Phylogenomic databases                       

   OpenTargets                         18370      18209      0.03      75      Organism-specific databases                  

   Orphanet                             6144       3286      0.01      98      Organism-specific databases                  

   OrthoDB                            293508     293508      0.53      20      Phylogenomic databases                       

   PANTHER                            283612     270620      0.51      23      Family and domain databases                  

   PATRIC                              91857      91857      0.16      40      Genome annotation databases                  

   PaxDb                              124653     124653      0.22      33      Proteomic databases                          

   PDB                                167430      26834      0.30      27      3D structure databases                       

   PDBsum                             167430      26834      0.30      28      3D structure databases                       

   PeptideAtlas                        32131      32131      0.06      57      Proteomic databases                          

   PeroxiBase                            773        755     <0.01     133      Protein family/group databases               

   Pfam                               762063     518628      1.36       4      Family and domain databases                  

   PharmGKB                            18360      18318      0.03      76      Organism-specific databases                  

   PhosphoSitePlus                     39022      39022      0.07      54      PTM databases                                

   PhylomeDB                           96327      96327      0.17      38      Phylogenomic databases                       

   PIR                                124185     113735      0.22      34      Sequence databases                           

   PIRSF                              108750     107721      0.19      37      Family and domain databases                  

   PMAP-CutDB                           1401       1401     <0.01     123      Other                                        

   PomBase                              5133       5129      0.01     102      Organism-specific databases                  

   PRIDE                              225011     225011      0.40      24      Proteomic databases                          

   PRINTS                             132904     117386      0.24      32      Family and domain databases                  

   PRO                                 95987      95987      0.17      39      Other                                        

   ProDom                              29146      28963      0.05      61      Family and domain databases                  

   ProMEX                                456        456     <0.01     142      Proteomic databases                          

   PROSITE                            467283     298841      0.84      10      Family and domain databases                  

   ProteinModelPortal                 449101     449101      0.80      11      3D structure databases                       

   Proteomes                          479260     455133      0.86       9      Other                                        

   ProteomicsDB                        36388      19835      0.07      56      Proteomic databases                          

   PseudoCAP                            1334       1325     <0.01     125      Organism-specific databases                  

   Reactome                           123603      36718      0.22      35      Enzyme and pathway databases                 

   REBASE                                395        395     <0.01     143      Protein family/group databases               

   RefSeq                             608326     463394      1.09       6      Sequence databases                           

   REPRODUCTION-2DPAGE                  1259       1038     <0.01     126      2D gel databases                             

   RGD                                  7974       7973      0.01      92      Organism-specific databases                  

   SABIO-RK                             3963       3963      0.01     111      Enzyme and pathway databases                 

   SFLD                                14139       6513      0.03      86      Family and domain databases                  

   SGD                                  6739       6734      0.01      96      Organism-specific databases                  

   SignaLink                            3065       3065      0.01     114      Enzyme and pathway databases                 

   SIGNOR                               4081       4081      0.01     110      Enzyme and pathway databases                 

   SMART                              192101     141790      0.34      25      Family and domain databases                  

   SMR                                444075     444075      0.79      12      3D structure databases                       

   STRING                             332666     332666      0.60      18      Protein-protein interaction databases        

   SUPFAM                             496981     376889      0.89       8      Family and domain databases                  

   SWISS-2DPAGE                         1177       1177     <0.01     127      2D gel databases                             

   SwissLipids                          1359       1272     <0.01     124      Chemistry                                    

   SwissPalm                            7256       7256      0.01      93      PTM databases                                

   TAIR                                14623      14567      0.03      85      Organism-specific databases                  

   TCDB                                 6793       6751      0.01      95      Protein family/group databases               

   TIGRFAMs                           292622     272599      0.52      21      Family and domain databases                  

   TopDownProteomics                    3241       2964      0.01     113      Proteomic databases                          

   TreeFam                             45474      45464      0.08      53      Phylogenomic databases                       

   TubercuList                          2190       2154     <0.01     117      Organism-specific databases                  

   UCD-2DPAGE                            496        496     <0.01     141      2D gel databases                             

   UCSC                                49894      45591      0.09      51      Genome annotation databases                  

   UniCarbKB                             584        584     <0.01     138      PTM databases                                

   UniGene                            109746      96207      0.20      36      Sequence databases                           

   UniLectin                             237        237     <0.01     149      Protein family/group databases               

   UniPathway                         136299     123518      0.24      31      Enzyme and pathway databases                 

   VectorBase                            597        517     <0.01     137      Genome annotation databases                  

   VGNC                                 3875       3875      0.01     112      Organism-specific databases                  

   WBParaSite                             34         34     <0.01     155      Genome annotation databases                  

   World-2DPAGE                          930        919     <0.01     132      2D gel databases                             

   WormBase                             6017       4593      0.01      99      Organism-specific databases                  

   Xenbase                              4557       4551      0.01     105      Organism-specific databases                  

   ZFIN                                 3060       3055      0.01     115      Organism-specific databases                  



Total number of cross-referenced databases: 155



6.  AMINO ACID COMPOSITION



   6.1  Composition in percent for the complete database



   Ala (A) 8.25   Gln (Q) 3.93   Leu (L) 9.65   Ser (S) 6.62

   Arg (R) 5.53   Glu (E) 6.73   Lys (K) 5.81   Thr (T) 5.35

   Asn (N) 4.05   Gly (G) 7.07   Met (M) 2.41   Trp (W) 1.09

   Asp (D) 5.46   His (H) 2.27   Phe (F) 3.86   Tyr (Y) 2.91

   Cys (C) 1.38   Ile (I) 5.92   Pro (P) 4.73   Val (V) 6.86



   Asx (B) 0.000  Glx (Z) 0.000  Xaa (X) 0.00



   



   Legend: gray = aliphatic, red = acidic, green = small hydroxy,

           blue = basic, black = aromatic, white = amide, yellow = sulfur





   6.2  Classification of the amino acids by their frequency



   Leu, Ala, Gly, Val, Glu, Ser, Ile, Lys, Arg, Asp, Thr, Pro, Asn, Gln,

   Phe, Tyr, Met, His, Cys, Trp





7.  MISCELLANEOUS STATISTICS



4464 entries are encoded on a mitochondrion, and 3882 are encoded on a plasmid.



12188 entries are encoded on a plastid, 

of which 21 are encoded on apicoplasts, 

11623 on chloroplasts, 

51 on organellar chromatophores,

145 on cyanelles, 

149 on non-photosynthetic plastids and 

199 on unspecified types of plastid.



Number of entries with at least one sequence correction: 79217