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         UniProtKB/Swiss-Prot protein knowledgebase release 2013_10 statistics





1.  INTRODUCTION



Release 2013_10 of 16-Oct-13 of UniProtKB/Swiss-Prot contains 541561 sequence entries,

comprising 192480382 amino acids abstracted from 223284 references. 



612 sequences have been added since release 2013_09, the sequence data of

70 existing entries has been updated and the annotations of

476712 entries have been revised.



Number of fragments: 9074

Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 35582





Protein existence (PE):           entries     %



1: Evidence at protein level        80698   14.9%

2: Evidence at transcript level     64060   11.8%

3: Inferred from homology          379258     70%

4: Predicted                        15644    2.9%

5: Uncertain                         1901    0.4%



The growth of the database is summarized below.



   





2.  TAXONOMIC ORIGIN



   Total number of species represented in this release of UniProtKB/Swiss-Prot: 13030



   The first twenty species represent 114000 sequences:  21.1 % of the total

   number of entries.





   2.1 Table of the frequency of occurrence of species



        Species represented 1x: 5438

                            2x: 1900

                            3x:  989

                            4x:  642

                            5x:  468

                            6x:  394

                            7x:  282

                            8x:  219

                            9x:  213

                           10x:  123

                       11- 20x:  697

                       21- 50x:  411

                       51-100x:  213

                         >100x: 1041





   2.2  Table of the most represented species



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

  Number  Frequency  Species

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

       1      20277  Homo sapiens (Human)

       2      16634  Mus musculus (Mouse)

       3      12439  Arabidopsis thaliana (Mouse-ear cress)

       4       7871  Rattus norvegicus (Rat)

       5       6621  Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

       6       5981  Bos taurus (Bovine)

       7       5089  Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)

       8       4431  Escherichia coli (strain K12)

       9       4188  Bacillus subtilis (strain 168)

      10       4127  Dictyostelium discoideum (Slime mold)

      11       3450  Caenorhabditis elegans

      12       3374  Xenopus laevis (African clawed frog)

      13       3203  Drosophila melanogaster (Fruit fly)

      14       3093  Oryza sativa subsp. japonica (Rice)

      15       2905  Danio rerio (Zebrafish) (Brachydanio rerio)

      16       2256  Gallus gallus (Chicken)

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

      18       2041  Mycobacterium tuberculosis

      19       2015  Escherichia coli O157:H7

      20       1787  Methanocaldococcus jannaschii  

      21       1772  Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

      22       1707  Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)

      23       1695  Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)

      24       1684  Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

      25       1679  Shigella flexneri

      26       1413  Sus scrofa (Pig)

      27       1346  Salmonella typhi

      28       1250  Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228)

      29       1242  Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97)

      30       1170  Macaca fascicularis (Crab-eating macaque) (Cynomolgus monkey)

      31       1042  Synechocystis sp. (strain PCC 6803 / Kazusa)

      32       1018  Yersinia pestis

      33       1015  Archaeoglobus fulgidus 

      34        953  Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)

      35        930  Salmonella paratyphi A (strain ATCC 9150 / SARB42)

      36        926  Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056)  

      37        925  Staphylococcus aureus (strain N315)

      38        924  Staphylococcus aureus (strain Mu50 / ATCC 700699)

      39        909  Acanthamoeba polyphaga mimivirus (APMV)

      40        905  Kluyveromyces lactis   

      41        899  Staphylococcus aureus (strain COL)

      42        895  Staphylococcus aureus (strain MW2)

      43        889  Escherichia coli O6:K15:H31 (strain 536 / UPEC)

      44        889  Staphylococcus aureus (strain MSSA476)

      45        888  Staphylococcus aureus (strain MRSA252)

      46        888  Oryctolagus cuniculus (Rabbit)

      47        882  Salmonella choleraesuis (strain SC-B67)

      48        878  Shigella sonnei (strain Ss046)

      49        870  Rhizobium meliloti (strain 1021) (Ensifer meliloti) (Sinorhizobium meliloti)

      50        863  Yersinia pseudotuberculosis serotype I (strain IP32953)

      51        862  Candida glabrata   

      52        841  Escherichia coli O9:H4 (strain HS)

      53        837  Neurospora crassa 

      54        834  Escherichia coli O139:H28 (strain E24377A / ETEC)

      55        829  Shigella boydii serotype 4 (strain Sb227)

      56        825  Escherichia coli (strain UTI89 / UPEC)

      57        821  Shigella dysenteriae serotype 1 (strain Sd197)

      58        819  Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks)

      59        807  Canis familiaris (Dog) (Canis lupus familiaris)

      60        791  Escherichia coli (strain SMS-3-5 / SECEC)

      61        788  Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)

      62        783  Erwinia carotovora subsp. atroseptica (strain SCRI 1043 / ATCC BAA-672) 

      63        782  Aquifex aeolicus (strain VF5)

      64        777  Emericella nidulans  

      65        775  Pasteurella multocida (strain Pm70)

      66        771  Escherichia coli (strain K12 / DH10B)

      67        765  Escherichia coli O127:H6 (strain E2348/69 / EPEC)

      68        765  Escherichia coli (strain K12 / MC4100 / BW2952)

      69        764  Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC)

      70        762  Escherichia coli (strain 55989 / EAEC)

      71        761  Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)

      72        761  Escherichia coli O8 (strain IAI1)

      73        760  Shigella flexneri serotype 5b (strain 8401)

      74        759  Staphylococcus epidermidis (strain ATCC 35984 / RP62A)

      75        758  Staphylococcus epidermidis (strain ATCC 12228)

      76        756  Escherichia coli (strain SE11)

      77        756  Escherichia coli O45:K1 (strain S88 / ExPEC)

      78        753  Escherichia coli O7:K1 (strain IAI39 / ExPEC)

      79        748  Escherichia coli O157:H7 (strain EC4115 / EHEC)

      80        745  Photorhabdus luminescens subsp. laumondii (strain TT01)

      81        740  Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)

      82        740  Staphylococcus aureus (strain NCTC 8325)

      83        736  Bacillus anthracis

      84        736  Bacillus halodurans 

      85        735  Yersinia enterocolitica serotype O:8 / biotype 1B (strain 8081)

      86        733  Vibrio vulnificus (strain CMCP6)

      87        731  Escherichia coli O81 (strain ED1a)

      88        726  Zea mays (Maize)

      89        721  Salmonella enteritidis PT4 (strain P125109)

      90        717  Vibrio vulnificus (strain YJ016)

      91        716  Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7)

      92        715  Yersinia pestis bv. Antiqua (strain Nepal516)

      93        714  Salmonella paratyphi A (strain AKU_12601)

      94        713  Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)

      95        713  Enterobacter sp. (strain 638)

      96        713  Salmonella agona (strain SL483)

      97        713  Escherichia coli O1:K1 / APEC

      98        713  Salmonella newport (strain SL254)

      99        713  Yersinia pseudotuberculosis serotype O:1b (strain IP 31758)

     100        712  Salmonella schwarzengrund (strain CVM19633)

     101        711  Yersinia pestis bv. Antiqua (strain Antiqua)

     102        710  Salmonella heidelberg (strain SL476)

     103        702  Salmonella dublin (strain CT_02021853)

     104        698  Shigella boydii serotype 18 (strain CDC 3083-94 / BS512)

     105        696  Klebsiella pneumoniae (strain 342)

     106        695  Pseudomonas putida (strain KT2440)

     107        695  Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73)

     108        690  Nostoc sp. (strain PCC 7120 / UTEX 2576)

     109        688  Pan troglodytes (Chimpanzee)

     110        687  Mycoplasma pneumoniae (strain ATCC 29342 / M129)

     111        683  Salmonella gallinarum (strain 287/91 / NCTC 13346)

     112        678  Citrobacter koseri (strain ATCC BAA-895 / CDC 4225-83 / SGSC4696)

     113        675  Pseudomonas syringae pv. tomato (strain DC3000)

     114        670  Serratia proteamaculans (strain 568)

     115        668  Mycobacterium leprae (strain TN)

     116        667  Yersinia pestis (strain Pestoides F)

     117        666  Staphylococcus aureus (strain USA300)

     118        663  Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) 

     119        658  Rhizobium sp. (strain NGR234)

     120        658  Bradyrhizobium japonicum (strain USDA 110)

     121        654  Bacillus cereus (strain ATCC 14579 / DSM 31)

     122        653  Debaryomyces hansenii   

     123        651  Escherichia coli

     124        643  Staphylococcus aureus (strain bovine RF122 / ET3-1)

     125        642  Salmonella arizonae (strain ATCC BAA-731 / CDC346-86 / RSK2980)

     126        642  Yarrowia lipolytica (strain CLIB 122 / E 150) (Yeast) (Candida lipolytica)

     127        638  Yersinia pseudotuberculosis serotype O:3 (strain YPIII)

     128        635  Shewanella oneidensis (strain MR-1)

     129        634  Yersinia pseudotuberculosis serotype IB (strain PB1/+)

     130        633  Agrobacterium tumefaciens (strain C58 / ATCC 33970)

     131        630  Oryza sativa subsp. indica (Rice)

     132        622  Cronobacter sakazakii (strain ATCC BAA-894) (Enterobacter sakazakii)

     133        616  Methanothermobacter thermautotrophicus  

     134        616  Treponema pallidum (strain Nichols)

     135        613  Staphylococcus haemolyticus (strain JCSC1435)

     136        607  Rhizobium loti (strain MAFF303099) (Mesorhizobium loti)

     137        605  Xanthomonas campestris pv. campestris (strain ATCC 33913 / NCPPB 528 / LMG 568)

     138        604  Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)

     139        602  Ralstonia solanacearum (strain GMI1000) (Pseudomonas solanacearum)

     140        602  Photobacterium profundum (Photobacterium sp. (strain SS9))

     141        602  Staphylococcus saprophyticus subsp. saprophyticus 

     142        601  Salmonella paratyphi C (strain RKS4594)

     143        600  Yersinia pestis bv. Antiqua (strain Angola)

     144        591  Listeria innocua serovar 6a (strain CLIP 11262)

     145        590  Bacillus cereus (strain ATCC 10987)

     146        589  Pectobacterium carotovorum subsp. carotovorum (strain PC1)

     147        586  Rickettsia prowazekii (strain Madrid E)

     148        581  Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)

     149        579  Neisseria meningitidis serogroup B (strain MC58)

     150        576  Brucella suis biovar 1 (strain 1330)

     151        572  Brucella melitensis biotype 1 (strain 16M / ATCC 23456 / NCTC 10094)

     152        572  Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) 

     153        568  Caenorhabditis briggsae

     154        567  Bacillus thuringiensis subsp. konkukian (strain 97-27)

     155        566  Helicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99)

     156        566  Pseudomonas syringae pv. syringae (strain B728a)

     157        565  Caulobacter crescentus (strain ATCC 19089 / CB15)

     158        564  Bacillus licheniformis (strain DSM 13 / ATCC 14580)

     159        564  Vibrio fischeri (strain ATCC 700601 / ES114)

     160        564  Pseudomonas aeruginosa (strain UCBPP-PA14)

     161        562  Buchnera aphidicola subsp. Schizaphis graminum (strain Sg)

     162        561  Bacillus cereus (strain ZK / E33L)

     163        557  Clostridium acetobutylicum 

     164        556  Xanthomonas axonopodis pv. citri (strain 306)

     165        552  Oceanobacillus iheyensis (strain DSM 14371 / JCM 11309 / KCTC 3954 / HTE831)

     166        552  Neisseria meningitidis serogroup A / serotype 4A (strain Z2491)

     167        552  Pseudomonas fluorescens (strain Pf0-1)

     168        546  Pseudomonas fluorescens (strain Pf-5 / ATCC BAA-477)

     169        545  Pseudomonas syringae pv. phaseolicola (strain 1448A / Race 6)

     170        533  Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)

     171        533  Lactococcus lactis subsp. lactis (strain IL1403) (Streptococcus lactis)

     172        531  Erwinia tasmaniensis (strain DSM 17950 / Et1/99)

     173        529  Sodalis glossinidius (strain morsitans)

     174        529  Listeria monocytogenes serotype 4b (strain F2365)

     175        525  Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50) 

     176        522  Xylella fastidiosa (strain 9a5c)

     177        515  Chromobacterium violaceum 

     178        515  Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251)

     179        513  Corynebacterium glutamicum 

     180        513  Vibrio cholerae serotype O1 (strain ATCC 39541 / Ogawa 395 / O395)

     181        512  Xylella fastidiosa (strain Temecula1 / ATCC 700964)

     182        511  Pseudomonas aeruginosa (strain PA7)

     183        510  Haemophilus ducreyi (strain 35000HP / ATCC 700724)

     184        508  Staphylococcus aureus (strain Newman)

     185        508  Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253)

     186        507  Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp)

     187        507  Geobacillus kaustophilus (strain HTA426)

     188        505  Streptomyces avermitilis 

     189        502  Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)

     190        502  Deinococcus radiodurans 

     191        500  Pseudomonas entomophila (strain L48)

     192        499  Brucella abortus biovar 1 (strain 9-941)

     193        497  Rickettsia conorii (strain ATCC VR-613 / Malish 7)

     194        496  Bacillus clausii (strain KSM-K16)

     195        495  Burkholderia pseudomallei (strain K96243)

     196        495  Haemophilus influenzae (strain 86-028NP)

     197        494  Proteus mirabilis (strain HI4320)

     198        492  Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 / JCM 12185 / C2A)

     199        492  Bacillus amyloliquefaciens (strain FZB42)

     200        491  Xanthomonas campestris pv. campestris (strain 8004)

     201        490  Vibrio harveyi (strain ATCC BAA-1116 / BB120)

     202        487  Shewanella sp. (strain MR-7)

     203        486  Mannheimia succiniciproducens (strain MBEL55E)

     204        484  Pseudomonas aeruginosa (strain LESB58)

     205        484  Staphylococcus aureus (strain Mu3 / ATCC 700698)

     206        484  Shewanella sp. (strain MR-4)

     207        483  Methanosarcina mazei  

     208        483  Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195)

     209        482  Acinetobacter sp. (strain ADP1)

     210        482  Thermosynechococcus elongatus (strain BP-1)

     211        481  Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)

     212        479  Pyrococcus horikoshii 

     213        478  Synechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)

     214        477  Pseudomonas putida (strain F1 / ATCC 700007)

     215        475  Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)

     216        474  Burkholderia sp. (strain 383) (Burkholderia cepacia 

     217        474  Brucella abortus (strain 2308)

     218        473  Streptococcus pneumoniae (strain ATCC BAA-255 / R6)

     219        473  Aspergillus oryzae (strain ATCC 42149 / RIB 40) (Yellow koji mold)

     220        469  Pyrococcus abyssi (strain GE5 / Orsay)

     221        468  Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1) 

     222        468  Clostridium perfringens (strain 13 / Type A)

     223        466  Xanthomonas campestris pv. vesicatoria (strain 85-10)

     224        466  Shewanella frigidimarina (strain NCIMB 400)

     225        466  Pseudomonas putida (strain GB-1)

     226        466  Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337) 

     227        464  Nicotiana tabacum (Common tobacco)

     228        464  Aeromonas hydrophila subsp. hydrophila (strain ATCC 7966 / NCIB 9240)

     229        463  Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)

     230        463  Shewanella sp. (strain ANA-3)

     231        462  Burkholderia mallei (strain ATCC 23344)

     232        462  Anabaena variabilis (strain ATCC 29413 / PCC 7937)

     233        461  Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)

     234        461  Rhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)

     235        459  Cupriavidus pinatubonensis (strain JMP134 / LMG 1197) (Alcaligenes eutrophus) 

     236        458  Enterococcus faecalis (strain ATCC 700802 / V583)

     237        455  Staphylococcus aureus (strain JH1)

     238        455  Campylobacter jejuni subsp. jejuni serotype O:2 (strain NCTC 11168)

     239        454  Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath)

     240        454  Ovis aries (Sheep)

     241        454  Xanthomonas oryzae pv. oryzae (strain MAFF 311018)

     242        453  Pseudomonas putida (strain W619)

     243        453  Rickettsia felis (strain ATCC VR-1525 / URRWXCal2) (Rickettsia azadi)

     244        452  Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)

     245        452  Shewanella baltica (strain OS185)

     246        451  Aeromonas salmonicida (strain A449)

     247        450  Mycobacterium paratuberculosis (strain ATCC BAA-968 / K-10)

     248        450  Dechloromonas aromatica (strain RCB)

     249        449  Thermoanaerobacter tengcongensis  

     250        449  Staphylococcus aureus (strain JH9)





   

   2.3  Taxonomic distribution of the sequences



   



   Kingdom        sequences (% of the database)

    Archaea           19057 (  4%)

    Bacteria         329218 ( 61%)

    Eukaryota        176863 ( 33%)

    Viruses           16423 (  3%)





   Within Eukaryota:



   



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

     Human                  20278 ( 11%)           (  4%)

     Other Mammalia         45947 ( 26%)           (  8%)

     Other Vertebrata       17524 ( 10%)           (  3%)

     Viridiplantae          34408 ( 19%)           (  6%)

     Fungi                  30931 ( 17%)           (  6%)

     Insecta                 8701 (  5%)           (  2%)

     Nematoda                4326 (  2%)           (  1%)

     Other                  14748 (  8%)           (  3%)







3.  SEQUENCE SIZE



   Repartition of the sequences by size (excluding fragments)



               From   To  Number             From   To   Number

                  1-  50    9070             1001-1100     3757

                 51- 100   41443             1101-1200     2605

                101- 150   57762             1201-1300     2028

                151- 200   57832             1301-1400     1887

                201- 250   56574             1401-1500     1519

                251- 300   50122             1501-1600      740

                301- 350   50282             1601-1700      570

                351- 400   43538             1701-1800      470

                401- 450   35610             1801-1900      433

                451- 500   28660             1901-2000      353

                501- 550   20422             2001-2100      216

                551- 600   14659             2101-2200      295

                601- 650   12297             2201-2300      299

                651- 700    8875             2301-2400      183

                701- 750    7312             2401-2500      139

                751- 800    5202             >2500         1096

                801- 850    4550

                851- 900    5035

                901- 950    3886

                951-1000    2766



   





   The average sequence length in UniProtKB/Swiss-Prot is 355 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: 2345





   4.1 Table of the frequency of journal citations



        Journals cited 1x:  756

                       2x:  311

                       3x:  158

                       4x:  113

                       5x:   90

                       6x:   75

                       7x:   57

                       8x:   49

                       9x:   35

                      10x:   33

                  11- 20x:  184

                  21- 50x:  189

                  51-100x:  104

                    >100x:  191





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



   Nb    Citations   Journal name

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

    1        21487   Journal of Biological Chemistry

    2         9713   Proceedings of the National Academy of Sciences of the U.S.A.

    3         5800   Journal of Bacteriology

    4         5096   Biochemical and Biophysical Research Communications

    5         4621   Gene

    6         4606   Nucleic Acids Research

    7         4543   Biochemistry

    8         4414   FEBS Letters

    9         4266   The EMBO Journal

   10         3962   Molecular and Cellular Biology

   11         3781   Nature

   12         3645   Journal of Molecular Biology

   13         3260   Biochimica et Biophysica Acta

   14         3255   European Journal of Biochemistry

   15         3089   Cell

   16         2647   Journal of Virology

   17         2544   Biochemical Journal

   18         2515   Science

   19         2513   Genomics

   20         2098   Molecular Microbiology

   21         1914   Plant Physiology

   22         1908   Journal of Cell Biology

   23         1666   Plant Molecular Biology

   24         1652   The American Journal of Human Genetics

   25         1621   Genes and Development

   26         1547   Virology

   27         1531   Nature Genetics

   28         1480   Human Molecular Genetics

   29         1453   Oncogene

   30         1372   Development

   31         1363   Molecular Biology of the Cell

   32         1350   Molecular and General Genetics

   33         1349   The Plant Cell

   34         1326   Human Mutation

   35         1254   Journal of Biochemistry

   36         1229   The Plant Journal

   37         1203   Molecular Cell

   38         1196   Journal of Immunology

   39         1118   Genetics

   40         1108   Structure

   41         1041   Journal of General Virology

   42          995   Blood

   43          970   Journal of Cell Science

   44          961   Infection and Immunity

   45          947   Archives of Biochemistry and Biophysics

   46          882   Microbiology

   47          849   Developmental Biology

   48          816   Cancer Research

   49          815   Current Biology

   50          790   Yeast

   51          745   FEMS Microbiology Letters

   52          703   Acta Crystallographica, Section D

   53          674   PLoS ONE

   54          671   Protein Science

   55          667   Applied and Environmental Microbiology

   56          664   Journal of Neuroscience

   57          656   Toxicon

   58          630   Human Genetics

   59          627   Nature Structural Biology

   60          626   Mechanisms of Development

   61          601   Neuron

   62          581   Journal of Clinical Investigation

   63          566   American Journal of Physiology

   64          541   Current Genetics

   65          539   The Journal of Experimental Medicine

   66          513   Proteins

   67          499   Plant and Cell Physiology

   68          493   Molecular Endocrinology

   69          479   Mammalian Genome

   70          475   Journal of Neurochemistry

   71          460   Immunogenetics

   72          457   Nature Cell Biology

   73          457   Bioscience, Biotechnology, and Biochemistry

   74          447   The Journal of Clinical Endocrinology and Metabolism

   75          442   Endocrinology

   76          440   Journal of Medical Genetics

   77          435   Molecular and Biochemical Parasitology

   78          401   Journal of Molecular Evolution

   79          386   Experimental Cell Research

   80          380   Molecular Biology and Evolution

   81          377   DNA and Cell Biology

   82          366   DNA Sequence

   83          356   Peptides

   84          354   Nature Structural and Molecular Biology

   85          339   RNA

   86          335   The FEBS Journal

   87          334   Developmental Cell

   88          330   Brain Research. Molecular Brain Research

   89          326   Antimicrobial Agents and Chemotherapy

   90          326   Tissue Antigens

   91          320   Comparative Biochemistry and Physiology

   92          313   Journal of Investigative Dermatology

   93          313   Planta

   94          308   Molecular Pharmacology

   95          294   Biological Chemistry Hoppe-Seyler

   96          292   Biology of Reproduction

   97          288   Neurology

   98          279   Cytogenetics and Cell Genetics

   99          276   Eukaryotic Cell

  100          275   Developmental Dynamics

  101          270   Virus Research

  102          267   Genome Research

  103          266   EMBO Reports

  104          265   Immunity

  105          263   Biochimie

  106          259   Journal of General Microbiology

  107          259   Genes to Cells

  108          251   The FASEB Journal

  109          245   Molecular Plant-Microbe Interactions

  110          244   The New England Journal of Medicine

  111          234   European Journal of Immunology

  112          233   Annals of Neurology

  113          230   Journal of the American Chemical Society

  114          229   European Journal of Human Genetics

  115          218   Hoppe-Seyler's Zeitschrift fur Physiologische Chemie

  116          216   DNA Research

  117          215   Acta Crystallographica, Section F

  118          213   Journal of Human Genetics

  119          208   Investigative Ophthalmology and Visual Science

  120          207   Archives of Microbiology

  121          201   Nature Immunology

  122          201   Journal of Cellular Biochemistry

  123          199   Journal of Experimental Botany

  124          198   BMC Genomics

  125          194   PLoS Genetics

  126          194   American Journal of Medical Genetics. Part A

  127          191   Archives of Virology

  128          190   Journal of Medicinal Chemistry

  129          189   Molecular and Cellular Endocrinology

  130          185   Molecular Immunology

  131          185   Glycobiology

  132          185   Clinical Genetics

  133          176   Diabetes

  134          174   Insect Biochemistry and Molecular Biology

  135          174   Circulation Research

  136          168   American Journal of Medical Genetics

  137          168   Molecular Phylogenetics and Evolution

  138          167   Traffic

  139          166   International Journal of Cancer

  140          165   Phytochemistry

  141          163   Molecular Genetics and Metabolism

  142          160   Cell Cycle

  143          159   Molecular Reproduction and Development

  144          159   Protein Expression and Purification

  145          159   DNA

  146          157   Biological Chemistry

  147          156   Molecular Genetics and Genomics

  148          156   Molecular and Cellular Neuroscience

  149          155   Hemoglobin

  150          154   Applied Microbiology and Biotechnology





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)                      1055454                 1.95                                         

   Journal                            849513     420291      1.57       1                                 

   Submitted to EMBL/GenBank/DDBJ     196804     175990      0.36       2                                 

   Submitted to other databases         6906       6425      0.01       3                                 

   Book citation                         724        710     <0.01       4                                 

   Plant Gene Register                   589        577     <0.01       5                                 

   Thesis                                417        414     <0.01       6                                 

   Unpublished observations              304        300     <0.01       7                                 

   Patent                                191        188     <0.01       8                                 

   Worm Breeder's Gazette                  6          6     <0.01       9                                 



Total number of distinct authors cited in UniProtKB/Swiss-Prot: 342138



                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Comments (CC)                        2455253                 4.53                                         

   ALLERGEN                              532        532     <0.01      27                                 

   ALTERNATIVE PRODUCTS                22432      22432      0.04      13                                 

   BIOPHYSICOCHEMICAL PROPERTIES        5281       5281      0.01      23                                 

   BIOTECHNOLOGY                         362        360     <0.01      28                                 

   CATALYTIC ACTIVITY                 246139     222385      0.45       5                                 

   CAUTION                              9668       9489      0.02      18                                 

   COFACTOR                           111060     101593      0.21       7                                 

   DEVELOPMENTAL STAGE                 10054      10054      0.02      17                                 

   DISEASE                              5421       3646      0.01      22                                 

   DISRUPTION PHENOTYPE                 6232       6232      0.01      20                                 

   DOMAIN                              40756      35565      0.08      10                                 

   ENZYME REGULATION                   11356      11356      0.02      16                                 

   FUNCTION                           426711     409113      0.79       2                                 

   INDUCTION                           15574      15574      0.03      14                                 

   INTERACTION                         12250      12250      0.02      15                                 

   MASS SPECTROMETRY                    5626       4289      0.01      21                                 

   MISCELLANEOUS                       32947      30437      0.06      12                                 

   PATHWAY                            132127     120242      0.24       6                                 

   PHARMACEUTICAL                         94         94     <0.01      29                                 

   POLYMORPHISM                          905        851     <0.01      24                                 

   PTM                                 45140      35154      0.08       8                                 

   RNA EDITING                           627        627     <0.01      25                                 

   SEQUENCE CAUTION                    41426      41426      0.08       9                                 

   SIMILARITY                         644481     516987      1.19       1                                 

   SUBCELLULAR LOCATION               329115     323018      0.61       3                                 

   SUBUNIT                            249544     249544      0.46       4                                 

   TISSUE SPECIFICITY                  39373      39373      0.07      11                                 

   TOXIC DOSE                            554        517     <0.01      26                                 

   WEB RESOURCE                         9466       7530      0.02      19                                 



Total number of comment topics: 29





                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Features (FT)                        3775815                 6.97                                         

   ACT_SITE                           144613      88291      0.27       9                                 

   BINDING                            304604      81116      0.56       4                                 

   CA_BIND                              3926       1644      0.01      35                                 

   CARBOHYD                           107891      27635      0.20      15                                 

   CHAIN                              548538     535316      1.01       1                                 

   COILED                              20424      14039      0.04      26                                 

   COMPBIAS                            54834      29172      0.10      18                                 

   CONFLICT                           128739      45090      0.24      12                                 

   CROSSLNK                             6938       3976      0.01      34                                 

   DISULFID                           110608      30327      0.20      14                                 

   DNA_BIND                            10446       9521      0.02      31                                 

   DOMAIN                             162814      96980      0.30       8                                 

   HELIX                              184782      17972      0.34       6                                 

   INIT_MET                            15679      15679      0.03      27                                 

   INTRAMEM                             2179        941     <0.01      37                                 

   LIPID                               12009       7622      0.02      30                                 

   METAL                              327562      81047      0.60       3                                 

   MOD_RES                            163237      60638      0.30       7                                 

   MOTIF                               36709      23755      0.07      24                                 

   MUTAGEN                             45580      10555      0.08      21                                 

   NON_CONS                             2043        751     <0.01      38                                 

   NON_STD                               355        280     <0.01      39                                 

   NON_TER                             12221       9339      0.02      29                                 

   NP_BIND                            122982      74267      0.23      13                                 

   PEPTIDE                             10353       7059      0.02      32                                 

   PROPEP                              12704      10925      0.02      28                                 

   REGION                             139731      70866      0.26      10                                 

   REPEAT                              96223      14235      0.18      16                                 

   SIGNAL                              38482      38472      0.07      23                                 

   SITE                                47622      26459      0.09      19                                 

   STRAND                             193261      16970      0.36       5                                 

   TOPO_DOM                           131413      27170      0.24      11                                 

   TRANSIT                              8466       8361      0.02      33                                 

   TRANSMEM                           357158      73750      0.66       2                                 

   TURN                                44937      14560      0.08      22                                 

   UNSURE                               3394        721      0.01      36                                 

   VAR_SEQ                             46500      19520      0.09      20                                 

   VARIANT                             86413      16818      0.16      17                                 

   ZN_FING                             29445      12956      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)               16084751                29.70                                                           

   Allergome                            1530        972     <0.01     101      Protein family/group databases               

   ArachnoServer                         761        753     <0.01     112      Organism-specific databases                  

   ArrayExpress                        36484      36484      0.07      48      Gene expression databases                    

   Bgee                                38802      38802      0.07      46      Gene expression databases                    

   BindingDB                            5033       5033      0.01      87      Other                                        

   BioCyc                             311955     301250      0.58      20      Enzyme and pathway databases                 

   BRENDA                               4340       4329      0.01      92      Enzyme and pathway databases                 

   CAZy                                 7658       6898      0.01      75      Protein family/group databases               

   CGD                                   720        698     <0.01     113      Organism-specific databases                  

   ChEMBL                               5637       5637      0.01      80      Other                                        

   ChiTaRS                             12539      12534      0.02      69      Other                                        

   CleanEx                             30084      29443      0.06      51      Gene expression databases                    

   COMPLUYEAST-2DPAGE                     99         98     <0.01     125      2D gel databases                             

   ConoServer                            926        844     <0.01     106      Organism-specific databases                  

   CTD                                 70480      69793      0.13      39      Organism-specific databases                  

   CYGD                                 5596       5593      0.01      81      Organism-specific databases                  

   dictyBase                            4201       4085      0.01      94      Organism-specific databases                  

   DIP                                 14727      14646      0.03      67      Protein-protein interaction databases        

   DisProt                               605        602     <0.01     117      3D structure databases                       

   DMDM                                16756      16753      0.03      64      Polymorphism databases                       

   DNASU                               18727      18656      0.03      60      Protocols and materials databases            

   DOSAC-COBS-2DPAGE                     149        147     <0.01     124      2D gel databases                             

   DrugBank                             5319       1628      0.01      84      Other                                        

   EchoBASE                             4161       4161      0.01      95      Organism-specific databases                  

   EcoGene                              4292       4290      0.01      93      Organism-specific databases                  

   eggNOG                             431220     431220      0.80      10      Phylogenomic databases                       

   EMBL                               944146     530277      1.74       3      Sequence databases                           

   Ensembl                             84511      48844      0.16      35      Genome annotation databases                  

   EnsemblBacteria                    343021     324839      0.63      18      Genome annotation databases                  

   EnsemblFungi                        18775      18465      0.03      59      Genome annotation databases                  

   EnsemblMetazoa                      12431       9322      0.02      72      Genome annotation databases                  

   EnsemblPlants                       16915      14920      0.03      63      Genome annotation databases                  

   EnsemblProtists                      4575       4448      0.01      91      Genome annotation databases                  

   euHCVdb                                55         44     <0.01     126      Organism-specific databases                  

   EuPathDB                              774        774     <0.01     109      Organism-specific databases                  

   EvolutionaryTrace                   16646      16646      0.03      65      Other                                        

   FlyBase                              5905       5531      0.01      79      Organism-specific databases                  

   Gene3D                             357311     272594      0.66      16      Family and domain databases                  

   GeneCards                           20055      19783      0.04      56      Organism-specific databases                  

   GeneFarm                             3229       3218      0.01      96      Organism-specific databases                  

   GeneID                             505596     472077      0.93       6      Genome annotation databases                  

   GeneTree                            38384      38365      0.07      47      Phylogenomic databases                       

   Genevestigator                      67674      67674      0.12      41      Gene expression databases                    

   GeneWiki                            10374      10286      0.02      73      Other                                        

   GenoList                             7074       7062      0.01      76      Organism-specific databases                  

   GenomeRNAi                          21312      21312      0.04      54      Other                                        

   GO                                2450003     511763      4.52       1      Ontologies                                   

   Gramene                              6054       6054      0.01      78      Organism-specific databases                  

   H-InvDB                              5594       4773      0.01      82      Organism-specific databases                  

   HAMAP                              317040     316624      0.59      19      Family and domain databases                  

   HGNC                                19883      19715      0.04      57      Organism-specific databases                  

   HOGENOM                            385981     385981      0.71      13      Phylogenomic databases                       

   HOVERGEN                            75601      75601      0.14      37      Phylogenomic databases                       

   HPA                                 19099      14747      0.04      58      Organism-specific databases                  

   InParanoid                          70329      70329      0.13      40      Phylogenomic databases                       

   IntAct                              40886      40886      0.08      45      Protein-protein interaction databases        

   InterPro                          1826607     519632      3.37       2      Family and domain databases                  

   IPI                                 98458      68236      0.18      34      Sequence databases                           

   KEGG                               476260     447298      0.88       8      Genome annotation databases                  

   KO                                 373999     373575      0.69      15      Phylogenomic databases                       

   LegioList                             765        763     <0.01     111      Organism-specific databases                  

   Leproma                               671        668     <0.01     115      Organism-specific databases                  

   MaizeGDB                              501        496     <0.01     119      Organism-specific databases                  

   MEROPS                              12499      12499      0.02      70      Protein family/group databases               

   MGI                                 16546      16501      0.03      66      Organism-specific databases                  

   MIM                                 18336      13807      0.03      62      Organism-specific databases                  

   MINT                                31542      31542      0.06      50      Protein-protein interaction databases        

   mycoCLAP                              282        277     <0.01     122      Protein family/group databases               

   NextBio                             70962      70962      0.13      38      Other                                        

   neXtProt                            20122      20122      0.04      55      Organism-specific databases                  

   OGP                                   377        377     <0.01     121      2D gel databases                             

   OMA                                400594     400594      0.74      11      Phylogenomic databases                       

   Orphanet                             5465       2931      0.01      83      Organism-specific databases                  

   OrthoDB                             78297      78297      0.14      36      Phylogenomic databases                       

   PANTHER                            187452     176515      0.35      24      Family and domain databases                  

   PATRIC                             309090     309059      0.57      21      Genome annotation databases                  

   PaxDb                               66719      66719      0.12      42      Proteomic databases                          

   PDB                                 98809      19954      0.18      33      3D structure databases                       

   PDBsum                              98809      19954      0.18      32      3D structure databases                       

   PeptideAtlas                         5162       5162      0.01      85      Proteomic databases                          

   PeroxiBase                            772        756     <0.01     110      Protein family/group databases               

   Pfam                               725905     499493      1.34       4      Family and domain databases                  

   PharmGKB                            18387      18359      0.03      61      Organism-specific databases                  

   PhosphoSite                         33568      33568      0.06      49      PTM databases                                

   PhosSite                              675        663     <0.01     114      PTM databases                                

   PhylomeDB                           27770      27770      0.05      53      Phylogenomic databases                       

   PIR                                119058     108886      0.22      29      Sequence databases                           

   PIRSF                              101479     100540      0.19      30      Family and domain databases                  

   PMAP-CutDB                           1457       1457     <0.01     102      Other                                        

   PomBase                              5011       4960      0.01      88      Organism-specific databases                  

   PptaseDB                               40         40     <0.01     127      Protein family/group databases               

   PRIDE                              123034     123034      0.23      28      Proteomic databases                          

   PRINTS                             136768     120538      0.25      26      Family and domain databases                  

   PRO                                 57857      57857      0.11      43      Other                                        

   ProDom                              29293      29114      0.05      52      Family and domain databases                  

   ProMEX                                852        852     <0.01     108      Proteomic databases                          

   PROSITE                            487632     306776      0.90       7      Family and domain databases                  

   ProtClustDB                        344483     344483      0.64      17      Phylogenomic databases                       

   ProteinModelPortal                 434804     434804      0.80       9      3D structure databases                       

   PseudoCAP                            1258       1249     <0.01     103      Organism-specific databases                  

   Reactome                            14070       8190      0.03      68      Enzyme and pathway databases                 

   REBASE                                405        405     <0.01     120      Protein family/group databases               

   RefSeq                             531862     472187      0.98       5      Sequence databases                           

   REPRODUCTION-2DPAGE                  1257       1036     <0.01     104      2D gel databases                             

   RGD                                  7788       7784      0.01      74      Organism-specific databases                  

   SABIO-RK                             2597       2597     <0.01      99      Enzyme and pathway databases                 

   SGD                                  6640       6635      0.01      77      Organism-specific databases                  

   SignaLink                            2959       2959      0.01      97      Enzyme and pathway databases                 

   SMART                              168231     125910      0.31      25      Family and domain databases                  

   SMR                                220678     220678      0.41      23      3D structure databases                       

   STRING                             396948     396947      0.73      12      Protein-protein interaction databases        

   SUPFAM                             378175     292767      0.70      14      Family and domain databases                  

   SWISS-2DPAGE                         1182       1181     <0.01     105      2D gel databases                             

   TAIR                                12448      12392      0.02      71      Organism-specific databases                  

   TCDB                                 5071       5049      0.01      86      Protein family/group databases               

   TIGRFAMs                           290620     269995      0.54      22      Family and domain databases                  

   TubercuList                          2054       2018     <0.01     100      Organism-specific databases                  

   UCD-2DPAGE                            509        500     <0.01     118      2D gel databases                             

   UCSC                                44802      44802      0.08      44      Genome annotation databases                  

   UniCarbKB                             272        272     <0.01     123      PTM databases                                

   UniGene                             99683      90451      0.18      31      Sequence databases                           

   UniPathway                         131980     120100      0.24      27      Enzyme and pathway databases                 

   VectorBase                            606        588     <0.01     116      Genome annotation databases                  

   World-2DPAGE                          921        910     <0.01     107      2D gel databases                             

   WormBase                             4967       3979      0.01      89      Organism-specific databases                  

   Xenbase                              4746       4740      0.01      90      Organism-specific databases                  

   ZFIN                                 2819       2819      0.01      98      Organism-specific databases                  



Total number of cross-referenced databases: 127



6.  AMINO ACID COMPOSITION



   6.1  Composition in percent for the complete database



   Ala (A) 8.25   Gln (Q) 3.93   Leu (L) 9.66   Ser (S) 6.57

   Arg (R) 5.53   Glu (E) 6.75   Lys (K) 5.84   Thr (T) 5.34

   Asn (N) 4.06   Gly (G) 7.07   Met (M) 2.42   Trp (W) 1.08

   Asp (D) 5.45   His (H) 2.27   Phe (F) 3.86   Tyr (Y) 2.92

   Cys (C) 1.37   Ile (I) 5.95   Pro (P) 4.70   Val (V) 6.87



   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 3731 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: 75206