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         UniProtKB/Swiss-Prot protein knowledgebase release 2019_09 statistics





1.  INTRODUCTION



Release 2019_09 of 16-Oct-19 of UniProtKB/Swiss-Prot contains 561176 sequence entries,

comprising 201758313 amino acids abstracted from 268833 references. 



560 sequences have been added since release 2019_08, the sequence data of

19 existing entries has been updated and the annotations of

220237 entries have been revised.



Number of fragments: 9178

Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 40190





Protein existence (PE):           entries     %



1: Evidence at protein level       101731   18.1%

2: Evidence at transcript level     57295   10.2%

3: Inferred from homology          386908   68.9%

4: Predicted                        13420    2.4%

5: Uncertain                         1822    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: 13822



   The first twenty species represent 121023 sequences:  21.6 % of the total

   number of entries.





   2.1 Table of the frequency of occurrence of species



        Species represented 1x: 5698

                            2x: 1975

                            3x: 1076

                            4x:  703

                            5x:  518

                            6x:  410

                            7x:  305

                            8x:  254

                            9x:  227

                           10x:  144

                       11- 20x:  772

                       21- 50x:  465

                       51-100x:  222

                         >100x: 1053





   2.2  Table of the most represented species



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

  Number  Frequency  Species

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

       1      20365  Homo sapiens (Human)

       2      17025  Mus musculus (Mouse)

       3      15896  Arabidopsis thaliana (Mouse-ear cress)

       4       8075  Rattus norvegicus (Rat)

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

       6       6008  Bos taurus (Bovine)

       7       5140  Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)

       8       4518  Escherichia coli (strain K12)

       9       4188  Bacillus subtilis (strain 168)

      10       4148  Dictyostelium discoideum (Slime mold)

      11       4090  Caenorhabditis elegans

      12       4059  Oryza sativa subsp. japonica (Rice)

      13       3586  Drosophila melanogaster (Fruit fly)

      14       3447  Xenopus laevis (African clawed frog)

      15       3125  Danio rerio (Zebrafish) (Brachydanio rerio)

      16       2291  Gallus gallus (Chicken)

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

      18       2185  Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)

      19       2040  Escherichia coli O157:H7

      20       1898  Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)

      21       1797  Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

      22       1787  Methanocaldococcus jannaschii  

      23       1707  Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)

      24       1706  Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)

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

      26       1685  Shigella flexneri

      27       1431  Sus scrofa (Pig)

      28       1347  Salmonella typhi

      29       1331  Pseudomonas aeruginosa 

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

      31       1175  Macaca fascicularis (Crab-eating macaque) (Cynomolgus monkey)

      32       1066  Synechocystis sp. (strain PCC 6803 / Kazusa)

      33       1035  Archaeoglobus fulgidus 

      34       1025  Yersinia pestis

      35       1010  Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)

      36        977  Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)

      37        941  Staphylococcus aureus (strain Mu50 / ATCC 700699)

      38        940  Emericella nidulans  

      39        930  Salmonella paratyphi A (strain ATCC 9150 / SARB42)

      40        929  Staphylococcus aureus (strain N315)

      41        927  Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056)  

      42        919  Kluyveromyces lactis   

      43        909  Acanthamoeba polyphaga mimivirus (APMV)

      44        903  Staphylococcus aureus (strain COL)

      45        896  Staphylococcus aureus (strain MW2)

      46        894  Escherichia coli O6:K15:H31 (strain 536 / UPEC)

      47        894  Oryctolagus cuniculus (Rabbit)

      48        889  Staphylococcus aureus (strain MSSA476)

      49        888  Staphylococcus aureus (strain MRSA252)

      50        883  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        856  Neurospora crassa 

      56        844  Oryza sativa subsp. indica (Rice)

      57        841  Escherichia coli O9:H4 (strain HS)

      58        834  Escherichia coli O139:H28 (strain E24377A / ETEC)

      59        831  Zea mays (Maize)

      60        829  Shigella boydii serotype 4 (strain Sb227)

      61        827  Canis lupus familiaris (Dog) (Canis familiaris)

      62        825  Escherichia coli (strain UTI89 / UPEC)

      63        822  Shigella dysenteriae serotype 1 (strain Sd197)

      64        821  Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) 

      65        819  Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks)

      66        803  Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672) 

      67        801  Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)

      68        794  Staphylococcus aureus (strain NCTC 8325)

      69        793  Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)

      70        791  Escherichia coli (strain SMS-3-5 / SECEC)

      71        786  Aquifex aeolicus (strain VF5)

      72        771  Escherichia coli (strain K12 / DH10B)

      73        770  Escherichia coli O127:H6 (strain E2348/69 / EPEC)

      74        770  Pasteurella multocida (strain Pm70)

      75        765  Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC)

      76        765  Escherichia coli (strain K12 / MC4100 / BW2952)

      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 laumondii subsp. laumondii (strain DSM 15139 / CIP 105565 / TT01)

      88        742  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        721  Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)

      94        718  Vibrio vulnificus (strain YJ016)

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

      96        715  Enterobacter sp. (strain 638)

      97        715  Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)

      98        715  Yersinia pestis bv. Antiqua (strain Nepal516)

      99        714  Escherichia coli O1:K1 / APEC

     100        714  Salmonella paratyphi A (strain AKU_12601)

     101        713  Yersinia pseudotuberculosis serotype O:1b (strain IP 31758)

     102        713  Salmonella newport (strain SL254)

     103        713  Salmonella agona (strain SL483)

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

     109        698  Klebsiella pneumoniae (strain 342)

     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        686  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        677  Staphylococcus aureus (strain USA300)

     118        676  Escherichia coli

     119        672  Serratia proteamaculans (strain 568)

     120        669  Mycobacterium leprae (strain TN)

     121        668  Bacillus cereus 

     122        667  Yersinia pestis (strain Pestoides F)

     123        664  Bradyrhizobium diazoefficiens 

     124        664  Yarrowia lipolytica (strain CLIB 122 / E 150) (Yeast) (Candida lipolytica)

     125        657  Sinorhizobium fredii (strain NBRC 101917 / NGR234)

     126        653  Debaryomyces hansenii   

     127        650  Shewanella oneidensis (strain MR-1)

     128        650  Agrobacterium fabrum (strain C58 / ATCC 33970) (Agrobacterium tumefaciens 

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

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

     131        640  Yersinia pseudotuberculosis serotype O:3 (strain YPIII)

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

     133        622  Cronobacter sakazakii (strain ATCC BAA-894) (Enterobacter sakazakii)

     134        622  Treponema pallidum (strain Nichols)

     135        620  Methanothermobacter thermautotrophicus  

     136        615  Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)

     137        615  Xanthomonas campestris pv. campestris 

     138        614  Staphylococcus haemolyticus (strain JCSC1435)

     139        611  Mesorhizobium japonicum  (Mesorhizobium loti 

     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        598  Pseudomonas aeruginosa (strain UCBPP-PA14)

     147        595  Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)

     148        594  Bacillus cereus (strain ATCC 10987 / NRS 248)

     149        591  Pectobacterium carotovorum subsp. carotovorum (strain PC1)

     150        584  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        560  Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155) 

     165        559  Clostridium acetobutylicum 

     166        557  Xanthomonas axonopodis pv. citri (strain 306)

     167        555  Pseudomonas fluorescens (strain Pf0-1)

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

     169        553  Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)

     170        553  Oceanobacillus iheyensis 

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

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

     173        540  Lactococcus lactis subsp. lactis (strain IL1403) (Streptococcus lactis)

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

     175        530  Corynebacterium glutamicum 

     176        529  Listeria monocytogenes serotype 4b (strain F2365)

     177        529  Sodalis glossinidius (strain morsitans)

     178        528  Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50) 

     179        524  Staphylococcus aureus (strain Newman)

     180        522  Xylella fastidiosa (strain 9a5c)

     181        520  Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)

     182        517  Chromobacterium violaceum 

     183        516  Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251)

     184        515  Deinococcus radiodurans 

     185        515  Xylella fastidiosa (strain Temecula1 / ATCC 700964)

     186        514  Aspergillus oryzae (strain ATCC 42149 / RIB 40) (Yellow koji mold)

     187        513  Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 / JCM 12185 / C2A)

     188        512  Pseudomonas aeruginosa (strain PA7)

     189        511  Streptomyces avermitilis 

     190        511  Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)

     191        510  Geobacillus kaustophilus (strain HTA426)

     192        510  Haemophilus ducreyi (strain 35000HP / ATCC 700724)

     193        508  Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253)

     194        507  Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp)

     195        502  Pseudomonas entomophila (strain L48)

     196        501  Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)

     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        496  Bacillus clausii (strain KSM-K16)

     201        496  Burkholderia pseudomallei (strain K96243)

     202        496  Rickettsia conorii (strain ATCC VR-613 / Malish 7)

     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        491  Vibrio campbellii (strain ATCC BAA-1116 / BB120)

     208        488  Pyrococcus horikoshii 

     209        488  Methanosarcina mazei  

     210        487  Shewanella sp. (strain MR-7)

     211        486  Brucella abortus (strain 2308)

     212        486  Mannheimia succiniciproducens (strain MBEL55E)

     213        485  Thermosynechococcus elongatus (strain BP-1)

     214        484  Pseudomonas aeruginosa (strain LESB58)

     215        484  Staphylococcus aureus (strain Mu3 / ATCC 700698)

     216        484  Shewanella sp. (strain MR-4)

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

     218        482  Streptococcus pneumoniae (strain ATCC BAA-255 / R6)

     219        482  Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2) 

     220        480  Synechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)

     221        480  Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)

     222        478  Pseudomonas putida (strain ATCC 700007 / DSM 6899 / BCRC 17059 / F1)

     223        477  Pyrococcus abyssi (strain GE5 / Orsay)

     224        477  Nicotiana tabacum (Common tobacco)

     225        475  Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337) 

     226        474  Burkholderia lata 

     227        474  Solanum lycopersicum (Tomato) (Lycopersicon esculentum)

     228        472  Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)

     229        469  Rhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)

     230        468  Clostridium perfringens (strain 13 / Type A)

     231        468  Pseudomonas putida (strain GB-1)

     232        467  Shewanella frigidimarina (strain NCIMB 400)

     233        467  Campylobacter jejuni subsp. jejuni serotype O:2 

     234        466  Aeromonas hydrophila subsp. hydrophila 

     235        466  Xanthomonas campestris pv. vesicatoria (strain 85-10)

     236        466  Shewanella sp. (strain ANA-3)

     237        465  Enterococcus faecalis (strain ATCC 700802 / V583)

     238        465  Trichormus variabilis (strain ATCC 29413 / PCC 7937) (Anabaena variabilis)

     239        463  Burkholderia mallei (strain ATCC 23344)

     240        459  Cupriavidus pinatubonensis (strain JMP 134 / LMG 1197) (Cupriavidus necator 

     241        458  Ovis aries (Sheep)

     242        458  Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath)

     243        457  Rickettsia felis (strain ATCC VR-1525 / URRWXCal2) (Rickettsia azadi)

     244        455  Staphylococcus aureus (strain JH1)

     245        455  Xanthomonas oryzae pv. oryzae (strain MAFF 311018)

     246        455  Shewanella baltica (strain OS185)

     247        453  Pseudomonas putida (strain W619)

     248        453  Streptococcus mutans serotype c (strain ATCC 700610 / UA159)

     249        452  Aeromonas salmonicida (strain A449)

     250        450  Caldanaerobacter subterraneus subsp. tengcongensis  





   

   2.3  Taxonomic distribution of the sequences



   



   Kingdom        sequences (% of the database)

    Archaea           19576 (  3%)

    Bacteria         334287 ( 60%)

    Eukaryota        190336 ( 34%)

    Viruses           16977 (  3%)





   Within Eukaryota:



   



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

     Human                  20366 ( 11%)           (  4%)

     Other Mammalia         46768 ( 25%)           (  8%)

     Other Vertebrata       18418 ( 10%)           (  3%)

     Viridiplantae          40137 ( 21%)           (  7%)

     Fungi                  34176 ( 18%)           (  6%)

     Insecta                 9340 (  5%)           (  2%)

     Nematoda                4999 (  3%)           (  1%)

     Other                  16132 (  8%)           (  3%)







3.  SEQUENCE SIZE



   Repartition of the sequences by size (excluding fragments)



               From   To  Number             From   To   Number

                  1-  50    9670             1001-1100     4015

                 51- 100   42736             1101-1200     2814

                101- 150   59260             1201-1300     2149

                151- 200   59051             1301-1400     2016

                201- 250   57906             1401-1500     1629

                251- 300   51651             1501-1600      800

                301- 350   52015             1601-1700      621

                351- 400   45091             1701-1800      563

                401- 450   37124             1801-1900      480

                451- 500   29956             1901-2000      379

                501- 550   21664             2001-2100      250

                551- 600   15436             2101-2200      345

                601- 650   12871             2201-2300      321

                651- 700    9246             2301-2400      215

                701- 750    7680             2401-2500      167

                751- 800    5554             >2500         1321

                801- 850    4794

                851- 900    5216

                901- 950    4055

                951-1000    2937



   





   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: 2832





   4.1 Table of the frequency of journal citations



        Journals cited 1x:  901

                       2x:  404

                       3x:  169

                       4x:  133

                       5x:  107

                       6x:   95

                       7x:   78

                       8x:   62

                       9x:   36

                      10x:   31

                  11- 20x:  225

                  21- 50x:  234

                  51-100x:  122

                    >100x:  235





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



   Nb    Citations   Journal name

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

    1        24959   Journal of Biological Chemistry

    2        11614   Proceedings of the National Academy of Sciences of the U.S.A.

    3         6675   Journal of Bacteriology

    4         5691   Biochemical and Biophysical Research Communications

    5         5402   Biochemistry

    6         5023   Nucleic Acids Research

    7         4860   FEBS Letters

    8         4823   Gene

    9         4717   The EMBO Journal

   10         4620   Nature

   11         4378   Molecular and Cellular Biology

   12         4305   Journal of Molecular Biology

   13         3690   Biochimica et Biophysica Acta

   14         3605   Cell

   15         3411   European Journal of Biochemistry

   16         3290   Journal of Virology

   17         3057   Science

   18         2891   Biochemical Journal

   19         2600   Plant Physiology

   20         2576   Molecular Microbiology

   21         2537   Genomics

   22         2214   Journal of Cell Biology

   23         2201   The American Journal of Human Genetics

   24         2033   The Plant Cell

   25         2008   PLoS ONE

   26         1880   The Plant Journal

   27         1873   Plant Molecular Biology

   28         1851   Human Molecular Genetics

   29         1846   Genes and Development

   30         1813   Virology

   31         1773   Nature Genetics

   32         1689   Molecular Biology of the Cell

   33         1684   Development

   34         1581   Human Mutation

   35         1568   Molecular Cell

   36         1543   Oncogene

   37         1496   Journal of Immunology

   38         1395   Molecular and General Genetics

   39         1368   Structure

   40         1350   Journal of Biochemistry

   41         1323   Genetics

   42         1277   Journal of Cell Science

   43         1172   Blood

   44         1149   Journal of General Virology

   45         1142   Infection and Immunity

   46         1077   Microbiology

   47         1064   Current Biology

   48         1062   Archives of Biochemistry and Biophysics

   49         1058   Developmental Biology

   50          926   Journal of Neuroscience

   51          923   Applied and Environmental Microbiology

   52          898   Acta Crystallographica, Section D

   53          887   Cancer Research

   54          845   FEMS Microbiology Letters

   55          839   Yeast

   56          788   Toxicon

   57          786   Protein Science

   58          766   Neuron

   59          748   Journal of Clinical Investigation

   60          702   Human Genetics

   61          701   Plant and Cell Physiology

   62          697   American Journal of Physiology

   63          680   PLoS Genetics

   64          658   The Journal of Experimental Medicine

   65          649   Mechanisms of Development

   66          646   Nature Structural Biology

   67          635   Proteins

   68          626   Journal of Medical Genetics

   69          584   Nature Cell Biology

   70          574   Current Genetics

   71          556   Bioscience, Biotechnology, and Biochemistry

   72          552   Nature Structural and Molecular Biology

   73          540   Journal of Neurochemistry

   74          539   Molecular Endocrinology

   75          531   The FEBS Journal

   76          521   The Journal of Clinical Endocrinology and Metabolism

   77          521   Developmental Cell

   78          516   Nature Communications

   79          506   Endocrinology

   80          488   Mammalian Genome

   81          479   Antimicrobial Agents and Chemotherapy

   82          464   Experimental Cell Research

   83          450   Molecular and Biochemical Parasitology

   84          440   Immunogenetics

   85          433   Planta

   86          433   Eukaryotic Cell

   87          429   Scientific Reports

   88          419   RNA

   89          417   Peptides

   90          407   Journal of Molecular Evolution

   91          402   PLoS Pathogens

   92          398   Molecular Biology and Evolution

   93          393   Journal of the American Chemical Society

   94          393   Journal of Experimental Botany

   95          388   DNA and Cell Biology

   96          382   Molecular Pharmacology

   97          375   DNA Sequence

   98          373   EMBO Reports

   99          372   The FASEB Journal

  100          370   Neurology

  101          369   American Journal of Medical Genetics. Part A

  102          368   Journal of Investigative Dermatology

  103          365   Acta Crystallographica, Section F

  104          362   Molecular Plant-Microbe Interactions

  105          356   European Journal of Human Genetics

  106          351   Comparative Biochemistry and Physiology

  107          350   Biology of Reproduction

  108          341   Immunity

  109          340   Brain Research. Molecular Brain Research

  110          328   Virus Research

  111          326   Genes to Cells

  112          323   Biochimie

  113          321   The New England Journal of Medicine

  114          318   Developmental Dynamics

  115          313   Clinical Genetics

  116          300   Annals of Neurology

  117          299   Genome Research

  118          297   Biological Chemistry Hoppe-Seyler

  119          285   European Journal of Immunology

  120          282   Cytogenetics and Cell Genetics

  121          281   BMC Genomics

  122          279   Nature Immunology

  123          273   Investigative Ophthalmology and Visual Science

  124          271   Journal of General Microbiology

  125          266   Applied Microbiology and Biotechnology

  126          266   Journal of Lipid Research

  127          262   Journal of Human Genetics

  128          261   PLoS Biology

  129          260   Journal of Medicinal Chemistry

  130          247   Archives of Microbiology

  131          241   Cell Reports

  132          240   Tissue Antigens

  133          240   Glycobiology

  134          235   Journal of Cellular Biochemistry

  135          232   DNA Research

  136          232   Traffic

  137          232   Molecular Immunology

  138          227   Molecular Genetics and Metabolism

  139          221   Cell Cycle

  140          219   Diabetes

  141          218   Hoppe-Seyler's Zeitschrift fur Physiologische Chemie

  142          217   Circulation Research

  143          213   Archives of Virology

  144          212   Phytochemistry

  145          210   Nature Medicine

  146          209   Protein Expression and Purification

  147          208   Molecular and Cellular Endocrinology

  148          206   Fungal Genetics and Biology

  149          196   Molecular Genetics and Genomics

  150          190   Chemistry and 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)                      1232980                 2.20                                         

   Journal                           1056631     458370      1.88       1                                 

   Submitted to EMBL/GenBank/DDBJ     165413     149780      0.29       2                                 

   Submitted to other databases         7440       6866      0.01       3                                 

   Book citation                        1815       1792     <0.01       4                                 

   Plant Gene Register                   612        599     <0.01       5                                 

   Thesis                                434        431     <0.01       6                                 

   Unpublished observations              420        416     <0.01       7                                 

   Patent                                209        203     <0.01       8                                 

   Worm Breeder's Gazette                  6          6     <0.01       9                                 



Total number of distinct authors cited in UniProtKB/Swiss-Prot: 417483



                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Comments (CC)                        2566280                 4.57                                         

   ACTIVITY REGULATION                 15312      15310      0.03      16                                 

   ALLERGEN                              868        868     <0.01      26                                 

   ALTERNATIVE PRODUCTS                25344      25344      0.05      13                                 

   BIOPHYSICOCHEMICAL PROPERTIES        8711       8711      0.02      20                                 

   BIOTECHNOLOGY                        1054       1038     <0.01      25                                 

   CATALYTIC ACTIVITY                 293790     240022      0.52       4                                 

   CAUTION                             13211      12945      0.02      18                                 

   COFACTOR                           126388     115027      0.23       7                                 

   DEVELOPMENTAL STAGE                 12431      12430      0.02      19                                 

   DISEASE                              7254       4878      0.01      21                                 

   DISRUPTION PHENOTYPE                15221      15218      0.03      17                                 

   DOMAIN                              50219      43068      0.09       9                                 

   FUNCTION                           469913     448816      0.84       2                                 

   INDUCTION                           21819      21807      0.04      14                                 

   INTERACTION                         19569      19569      0.03      15                                 

   MASS SPECTROMETRY                    6862       5274      0.01      23                                 

   MISCELLANEOUS                       39022      35839      0.07      12                                 

   PATHWAY                            139345     126299      0.25       6                                 

   PHARMACEUTICAL                        118        114     <0.01      29                                 

   POLYMORPHISM                         1269       1213     <0.01      24                                 

   PTM                                 57900      42441      0.10       8                                 

   RNA EDITING                           627        627     <0.01      28                                 

   SEQUENCE CAUTION                    44222      44222      0.08      11                                 

   SIMILARITY                         510018     505844      0.91       1                                 

   SUBCELLULAR LOCATION               351250     343680      0.63       3                                 

   SUBUNIT                            280236     279314      0.50       5                                 

   TISSUE SPECIFICITY                  46712      46711      0.08      10                                 

   TOXIC DOSE                            675        616     <0.01      27                                 

   WEB RESOURCE                         6920       5752      0.01      22                                 



Total number of comment topics: 29





                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Features (FT)                        4563709                 8.13                                         

   ACT_SITE                           165386     100119      0.29      10                                 

   BINDING                            409082     108425      0.73       2                                 

   CA_BIND                              4206       1743      0.01      36                                 

   CARBOHYD                           116985      30081      0.21      15                                 

   CHAIN                              569246     554034      1.01       1                                 

   COILED                              22084      15284      0.04      27                                 

   COMPBIAS                            59164      31831      0.11      21                                 

   CONFLICT                           135861      47523      0.24      13                                 

   CROSSLNK                            23710       8515      0.04      26                                 

   DISULFID                           126599      33995      0.23      14                                 

   DNA_BIND                            11875      10618      0.02      32                                 

   DOMAIN                             199844     122749      0.36       9                                 

   HELIX                              266601      24383      0.48       6                                 

   INIT_MET                            17207      17207      0.03      28                                 

   INTRAMEM                             2791       1275     <0.01      37                                 

   LIPID                               13156       8488      0.02      30                                 

   METAL                              395608      96709      0.70       3                                 

   MOD_RES                            249685      72167      0.44       7                                 

   MOTIF                               44081      28813      0.08      23                                 

   MUTAGEN                             74027      16086      0.13      18                                 

   NON_CONS                             2260        789     <0.01      38                                 

   NON_STD                               357        282     <0.01      39                                 

   NON_TER                             12441       9550      0.02      31                                 

   NP_BIND                            158449      86059      0.28      11                                 

   PEPTIDE                             11682       8050      0.02      33                                 

   PROPEP                              14362      12253      0.03      29                                 

   REGION                             201701      94777      0.36       8                                 

   REPEAT                             105876      14822      0.19      16                                 

   SIGNAL                              42426      42425      0.08      24                                 

   SITE                                59564      32370      0.11      20                                 

   STRAND                             276364      22982      0.49       5                                 

   TOPO_DOM                           141210      28887      0.25      12                                 

   TRANSIT                              9169       9053      0.02      34                                 

   TRANSMEM                           372478      77755      0.66       4                                 

   TURN                                64208      19828      0.11      19                                 

   UNSURE                               4470        806      0.01      35                                 

   VAR_SEQ                             52178      22118      0.09      22                                 

   VARIANT                             97348      17108      0.17      17                                 

   ZN_FING                             29968      12753      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)               18544943                33.05                                                           

   ABCD                                 1373       1373     <0.01     125      Protocols and materials databases            

   Allergome                            1924       1252     <0.01     120      Protein family/group databases               

   ArachnoServer                        1163       1154     <0.01     129      Organism-specific databases                  

   Araport                             15916      15820      0.03      81      Organism-specific databases                  

   Bgee                                56705      56704      0.10      41      Gene expression databases                    

   BindingDB                            5155       5155      0.01      98      Chemistry                                    

   BioCyc                             270102     244515      0.48      22      Enzyme and pathway databases                 

   BioGrid                             54466      52779      0.10      45      Protein-protein interaction databases        

   BioMuta                             20317      20302      0.04      67      Polymorphism and mutation databases          

   BRENDA                              12954      12171      0.02      84      Enzyme and pathway databases                 

   CarbonylDB                           1157       1157     <0.01     130      PTM databases                                

   CAZy                                 9506       8569      0.02      87      Protein family/group databases               

   CCDS                                48296      34253      0.09      49      Sequence databases                           

   CDD                                184175     167176      0.33      26      Family and domain databases                  

   CGD                                  1998       1981     <0.01     119      Organism-specific databases                  

   ChEMBL                               7279       7158      0.01      93      Chemistry                                    

   ChiTaRS                             29622      29585      0.05      54      Other                                        

   CollecTF                              133        133     <0.01     153      Gene expression databases                    

   ComplexPortal                        9100       4784      0.02      88      Protein-protein interaction databases        

   COMPLUYEAST-2DPAGE                     97         97     <0.01     154      2D gel databases                             

   ConoServer                            952        869     <0.01     131      Organism-specific databases                  

   CORUM                                5805       5805      0.01      97      Protein-protein interaction databases        

   CPTAC                                2221       1423     <0.01     115      Proteomic databases                          

   CTD                                 75255      74356      0.13      40      Organism-specific databases                  

   DEPOD                                 239        239     <0.01     151      PTM databases                                

   dictyBase                            4213       4099      0.01     107      Organism-specific databases                  

   DIP                                 17396      17364      0.03      77      Protein-protein interaction databases        

   DisGeNET                            15661      15430      0.03      82      Organism-specific databases                  

   DisProt                               700        700     <0.01     136      Family and domain databases                  

   DMDM                                16211      16209      0.03      80      Polymorphism and mutation databases          

   DNASU                               19015      18949      0.03      72      Protocols and materials databases            

   DOSAC-COBS-2DPAGE                     145        145     <0.01     152      2D gel databases                             

   DrugBank                            27239       4519      0.05      60      Chemistry                                    

   DrugCentral                          2531       2531     <0.01     114      Chemistry                                    

   EchoBASE                             4159       4159      0.01     108      Organism-specific databases                  

   EcoGene                              4293       4293      0.01     104      Organism-specific databases                  

   eggNOG                             666217     332380      1.19       5      Phylogenomic databases                       

   ELM                                  1811       1811     <0.01     121      Protein-protein interaction databases        

   EMBL                               985467     549152      1.76       3      Sequence databases                           

   Ensembl                             91789      50556      0.16      39      Genome annotation databases                  

   EnsemblBacteria                    355935     336759      0.63      16      Genome annotation databases                  

   EnsemblFungi                        29538      27983      0.05      56      Genome annotation databases                  

   EnsemblMetazoa                      17645      10333      0.03      75      Genome annotation databases                  

   EnsemblPlants                       28020      20971      0.05      57      Genome annotation databases                  

   EnsemblProtists                      4919       4740      0.01     101      Genome annotation databases                  

   EPD                                 22035      22035      0.04      64      Proteomic databases                          

   ESTHER                               2539       2538     <0.01     113      Protein family/group databases               

   euHCVdb                                55         44     <0.01     156      Organism-specific databases                  

   EuPathDB                            19694      19682      0.04      71      Organism-specific databases                  

   EvolutionaryTrace                   16631      16631      0.03      79      Other                                        

   ExpressionAtlas                     49467      49467      0.09      48      Gene expression databases                    

   FlyBase                              4891       4765      0.01     102      Organism-specific databases                  

   Gene3D                             391368     305612      0.70      15      Family and domain databases                  

   GeneCards                           20345      20172      0.04      66      Organism-specific databases                  

   GeneDB                                579        523     <0.01     140      Genome annotation databases                  

   GeneID                             289890     279968      0.52      20      Genome annotation databases                  

   GeneReviews                          1479       1475     <0.01     122      Organism-specific databases                  

   GeneTree                            55884      55834      0.10      42      Phylogenomic databases                       

   Genevisible                         55234      55234      0.10      43      Gene expression databases                    

   GeneWiki                            10352      10269      0.02      86      Other                                        

   GenomeRNAi                          22142      22142      0.04      63      Other                                        

   GlyConnect                           2201       2113     <0.01     117      PTM databases                                

   GO                                2974593     535739      5.30       1      Ontologies                                   

   Gramene                             28020      20971      0.05      58      Genome annotation databases                  

   GuidetoPHARMACOLOGY                  1998       1998     <0.01     118      Chemistry                                    

   HAMAP                              330109     327206      0.59      17      Family and domain databases                  

   HGNC                                20310      20171      0.04      68      Organism-specific databases                  

   HOGENOM                            392234     392234      0.70      14      Phylogenomic databases                       

   HPA                                 27373      16808      0.05      59      Organism-specific databases                  

   IMGT_GENE-DB                          266        266     <0.01     150      Protein family/group databases               

   InParanoid                         139847     139847      0.25      29      Phylogenomic databases                       

   IntAct                              54671      54671      0.10      44      Protein-protein interaction databases        

   InterPro                          2290236     542183      4.08       2      Family and domain databases                  

   iPTMnet                             52596      52596      0.09      46      PTM databases                                

   jPOST                               26780      26780      0.05      61      Proteomic databases                          

   KEGG                               504681     475748      0.90       7      Genome annotation databases                  

   KO                                 407748     407301      0.73      13      Phylogenomic databases                       

   LegioList                             765        763     <0.01     135      Organism-specific databases                  

   Leproma                               672        669     <0.01     137      Organism-specific databases                  

   MaizeGDB                              520        516     <0.01     141      Organism-specific databases                  

   MalaCards                            4604       4600      0.01     103      Organism-specific databases                  

   MassIVE                             17458      17458      0.03      76      Proteomic databases                          

   MaxQB                               29592      29592      0.05      55      Proteomic databases                          

   MEROPS                              11449      11447      0.02      85      Protein family/group databases               

   MGI                                 16935      16895      0.03      78      Organism-specific databases                  

   MIM                                 21335      15140      0.04      65      Organism-specific databases                  

   MINT                                22774      22774      0.04      62      Protein-protein interaction databases        

   MoonDB                                348        348     <0.01     147      Protein family/group databases               

   MoonProt                              280        280     <0.01     148      Protein family/group databases               

   mycoCLAP                              355        352     <0.01     146      Protein family/group databases               

   neXtProt                            20278      20278      0.04      69      Organism-specific databases                  

   NIAGADS                                72         72     <0.01     155      Organism-specific databases                  

   OGP                                   373        373     <0.01     145      2D gel databases                             

   OMA                                411627     411627      0.73      12      Phylogenomic databases                       

   OpenTargets                         18422      18268      0.03      73      Organism-specific databases                  

   Orphanet                             7560       4011      0.01      92      Organism-specific databases                  

   OrthoDB                            257179     257179      0.46      23      Phylogenomic databases                       

   PANTHER                            281470     269884      0.50      21      Family and domain databases                  

   PATRIC                              92147      92147      0.16      38      Genome annotation databases                  

   PaxDb                              124861     124861      0.22      32      Proteomic databases                          

   PDB                                184092      28114      0.33      28      3D structure databases                       

   PDBsum                             184092      28114      0.33      27      3D structure databases                       

   PeptideAtlas                        32486      32486      0.06      53      Proteomic databases                          

   PeroxiBase                            782        760     <0.01     134      Protein family/group databases               

   Pfam                               780232     521964      1.39       4      Family and domain databases                  

   PharmGKB                            18318      18300      0.03      74      Organism-specific databases                  

   Pharos                              20125      20125      0.04      70      Other                                        

   PhosphoSitePlus                     39015      39015      0.07      52      PTM databases                                

   PhylomeDB                           96429      96429      0.17      36      Phylogenomic databases                       

   PIR                                124187     113900      0.22      33      Sequence databases                           

   PIRSF                              108967     107938      0.19      35      Family and domain databases                  

   PlantReactome                         941        671     <0.01     132      Enzyme and pathway databases                 

   PMAP-CutDB                           1400       1400     <0.01     123      Other                                        

   PomBase                              5132       5128      0.01      99      Organism-specific databases                  

   PRIDE                              234523     234523      0.42      24      Proteomic databases                          

   PRINTS                             131702     117000      0.23      31      Family and domain databases                  

   PRO                                 95974      95974      0.17      37      Other                                        

   ProMEX                                462        462     <0.01     143      Proteomic databases                          

   PROSITE                            473676     301403      0.84      10      Family and domain databases                  

   Proteomes                          484415     460152      0.86       9      Other                                        

   ProteomicsDB                        40879      19836      0.07      51      Proteomic databases                          

   PseudoCAP                            1339       1330     <0.01     126      Organism-specific databases                  

   Reactome                           118472      36209      0.21      34      Enzyme and pathway databases                 

   REBASE                                406        406     <0.01     144      Protein family/group databases               

   RefSeq                             613081     467293      1.09       6      Sequence databases                           

   REPRODUCTION-2DPAGE                  1259       1038     <0.01     127      2D gel databases                             

   RGD                                  7999       7997      0.01      91      Organism-specific databases                  

   SABIO-RK                             4262       4262      0.01     106      Enzyme and pathway databases                 

   SFLD                                 8106       6016      0.01      90      Family and domain databases                  

   SGD                                  6740       6735      0.01      95      Organism-specific databases                  

   SignaLink                            3069       3069      0.01     112      Enzyme and pathway databases                 

   SIGNOR                               4277       4277      0.01     105      Enzyme and pathway databases                 

   SMART                              192996     142300      0.34      25      Family and domain databases                  

   SMR                                445592     445592      0.79      11      3D structure databases                       

   STRING                             328639     328639      0.59      18      Protein-protein interaction databases        

   SUPFAM                             499675     378911      0.89       8      Family and domain databases                  

   SWISS-2DPAGE                         1177       1177     <0.01     128      2D gel databases                             

   SwissLipids                          1392       1305     <0.01     124      Chemistry                                    

   SwissPalm                            8597       8597      0.02      89      PTM databases                                

   TAIR                                14701      14645      0.03      83      Organism-specific databases                  

   TCDB                                 7208       7158      0.01      94      Protein family/group databases               

   TIGRFAMs                           292592     272589      0.52      19      Family and domain databases                  

   TopDownProteomics                    3239       2962      0.01     110      Proteomic databases                          

   TreeFam                             45598      45588      0.08      50      Phylogenomic databases                       

   TubercuList                          2203       2167     <0.01     116      Organism-specific databases                  

   UCD-2DPAGE                            496        496     <0.01     142      2D gel databases                             

   UCSC                                50094      45750      0.09      47      Genome annotation databases                  

   UniCarbKB                             584        584     <0.01     138      PTM databases                                

   UniLectin                             275        275     <0.01     149      Protein family/group databases               

   UniPathway                         137089     124143      0.24      30      Enzyme and pathway databases                 

   VectorBase                            581        502     <0.01     139      Genome annotation databases                  

   VGNC                                 3968       3968      0.01     109      Organism-specific databases                  

   WBParaSite                             32         32     <0.01     157      Genome annotation databases                  

   World-2DPAGE                          931        920     <0.01     133      2D gel databases                             

   WormBase                             6194       4689      0.01      96      Organism-specific databases                  

   Xenbase                              5010       4979      0.01     100      Organism-specific databases                  

   ZFIN                                 3103       3098      0.01     111      Organism-specific databases                  



Total number of cross-referenced databases: 157



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) 6.63

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

   Asn (N) 4.06   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) 2.92

   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 3916 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: 79572