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         UniProtKB/Swiss-Prot protein knowledgebase release 2013_04 statistics





1.  INTRODUCTION



Release 2013_04 of 03-Apr-13 of UniProtKB/Swiss-Prot contains 539829 sequence entries,

comprising 191670831 amino acids abstracted from 218024 references. 



220 sequences have been added since release 2013_03, the sequence data of

34 existing entries has been updated and the annotations of

497578 entries have been revised.



Number of fragments: 9060

Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 34127





Protein existence (PE):           entries     %



1: Evidence at protein level        78655   14.6%

2: Evidence at transcript level     64309   11.9%

3: Inferred from homology          379236   70.3%

4: Predicted                        15736    2.9%

5: Uncertain                         1893    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: 12973



   The first twenty species represent 113268 sequences:    21 % of the total

   number of entries.





   2.1 Table of the frequency of occurrence of species



        Species represented 1x: 5433

                            2x: 1883

                            3x:  985

                            4x:  645

                            5x:  469

                            6x:  386

                            7x:  283

                            8x:  220

                            9x:  202

                           10x:  121

                       11- 20x:  689

                       21- 50x:  404

                       51-100x:  212

                         >100x: 1041





   2.2  Table of the most represented species



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

  Number  Frequency  Species

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

       1      20252  Homo sapiens (Human)

       2      16604  Mus musculus (Mouse)

       3      11971  Arabidopsis thaliana (Mouse-ear cress)

       4       7844  Rattus norvegicus (Rat)

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

       6       5977  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       4126  Dictyostelium discoideum (Slime mold)

      11       3417  Caenorhabditis elegans

      12       3363  Xenopus laevis (African clawed frog)

      13       3188  Drosophila melanogaster (Fruit fly)

      14       3022  Oryza sativa subsp. japonica (Rice)

      15       2881  Danio rerio (Zebrafish) (Brachydanio rerio)

      16       2253  Gallus gallus (Chicken)

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

      18       2022  Mycobacterium tuberculosis

      19       2014  Escherichia coli O157:H7

      20       1787  Methanocaldococcus jannaschii  

      21       1771  Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

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

      23       1691  Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)

      24       1683  Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

      25       1678  Shigella flexneri

      26       1412  Sus scrofa (Pig)

      27       1346  Salmonella typhi

      28       1243  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       1036  Synechocystis sp. (strain PCC 6803 / Kazusa)

      32       1018  Yersinia pestis

      33       1014  Archaeoglobus fulgidus 

      34        950  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        923  Staphylococcus aureus (strain Mu50 / ATCC 700699)

      39        909  Acanthamoeba polyphaga mimivirus (APMV)

      40        904  Kluyveromyces lactis   

      41        899  Staphylococcus aureus (strain COL)

      42        895  Staphylococcus aureus (strain MW2)

      43        889  Staphylococcus aureus (strain MSSA476)

      44        889  Oryctolagus cuniculus (Rabbit)

      45        888  Escherichia coli O6:K15:H31 (strain 536 / UPEC)

      46        888  Staphylococcus aureus (strain MRSA252)

      47        882  Salmonella choleraesuis (strain SC-B67)

      48        878  Shigella sonnei (strain Ss046)

      49        869  Rhizobium meliloti (strain 1021) (Ensifer meliloti) (Sinorhizobium meliloti)

      50        863  Yersinia pseudotuberculosis serotype I (strain IP32953)

      51        861  Candida glabrata   

      52        841  Escherichia coli O9:H4 (strain HS)

      53        835  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        803  Canis familiaris (Dog) (Canis lupus familiaris)

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

      61        787  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        775  Pasteurella multocida (strain Pm70)

      65        773  Emericella nidulans  

      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  Escherichia coli O8 (strain IAI1)

      72        760  Shigella flexneri serotype 5b (strain 8401)

      73        759  Staphylococcus epidermidis (strain ATCC 35984 / RP62A)

      74        758  Staphylococcus epidermidis (strain ATCC 12228)

      75        756  Escherichia coli (strain SE11)

      76        756  Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)

      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        744  Photorhabdus luminescens subsp. laumondii (strain TT01)

      81        740  Staphylococcus aureus (strain NCTC 8325)

      82        735  Bacillus anthracis

      83        735  Bacillus halodurans 

      84        735  Yersinia enterocolitica serotype O:8 / biotype 1B (strain 8081)

      85        733  Vibrio vulnificus (strain CMCP6)

      86        731  Escherichia coli O81 (strain ED1a)

      87        721  Salmonella enteritidis PT4 (strain P125109)

      88        717  Vibrio vulnificus (strain YJ016)

      89        716  Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7)

      90        715  Yersinia pestis bv. Antiqua (strain Nepal516)

      91        715  Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)

      92        714  Zea mays (Maize)

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

     107        693  Pseudomonas putida (strain KT2440)

     108        689  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        658  Rhizobium sp. (strain NGR234)

     119        656  Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) 

     120        654  Bradyrhizobium japonicum (strain USDA 110)

     121        653  Debaryomyces hansenii   

     122        652  Bacillus cereus (strain ATCC 14579 / DSM 31)

     123        646  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        632  Agrobacterium tumefaciens (strain C58 / ATCC 33970)

     131        622  Cronobacter sakazakii (strain ATCC BAA-894) (Enterobacter sakazakii)

     132        622  Oryza sativa subsp. indica (Rice)

     133        616  Treponema pallidum (strain Nichols)

     134        613  Methanothermobacter thermautotrophicus  

     135        612  Staphylococcus haemolyticus (strain JCSC1435)

     136        606  Rhizobium loti (strain MAFF303099) (Mesorhizobium loti)

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

     138        602  Ralstonia solanacearum (strain GMI1000) (Pseudomonas solanacearum)

     139        602  Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)

     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  Pseudomonas syringae pv. syringae (strain B728a)

     156        565  Helicobacter pylori (strain J99) (Campylobacter pylori J99)

     157        564  Vibrio fischeri (strain ATCC 700601 / ES114)

     158        564  Caulobacter crescentus (strain ATCC 19089 / CB15)

     159        564  Pseudomonas aeruginosa (strain UCBPP-PA14)

     160        562  Bacillus licheniformis (strain DSM 13 / ATCC 14580)

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

     171        531  Erwinia tasmaniensis (strain DSM 17950 / Et1/99)

     172        529  Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)

     173        529  Sodalis glossinidius (strain morsitans)

     174        529  Listeria monocytogenes serotype 4b (strain F2365)

     175        522  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        512  Xylella fastidiosa (strain Temecula1 / ATCC 700964)

     181        511  Pseudomonas aeruginosa (strain PA7)

     182        511  Vibrio cholerae serotype O1 (strain ATCC 39541 / Ogawa 395 / O395)

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

     208        481  Thermosynechococcus elongatus (strain BP-1)

     209        480  Acinetobacter sp. (strain ADP1)

     210        479  Pyrococcus horikoshii 

     211        478  Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)

     212        478  Synechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)

     213        475  Pseudomonas putida (strain F1 / ATCC 700007)

     214        474  Burkholderia sp. (strain 383) (Burkholderia cepacia 

     215        474  Brucella abortus (strain 2308)

     216        473  Streptococcus pneumoniae (strain ATCC BAA-255 / R6)

     217        473  Aspergillus oryzae (strain ATCC 42149 / RIB 40) (Yellow koji mold)

     218        469  Methanosarcina mazei  

     219        468  Pyrococcus abyssi (strain GE5 / Orsay)

     220        468  Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1) 

     221        468  Clostridium perfringens (strain 13 / Type A)

     222        466  Xanthomonas campestris pv. vesicatoria (strain 85-10)

     223        466  Shewanella frigidimarina (strain NCIMB 400)

     224        466  Pseudomonas putida (strain GB-1)

     225        466  Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337) 

     226        464  Aeromonas hydrophila subsp. hydrophila (strain ATCC 7966 / NCIB 9240)

     227        463  Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)

     228        463  Shewanella sp. (strain ANA-3)

     229        462  Burkholderia mallei (strain ATCC 23344)

     230        462  Anabaena variabilis (strain ATCC 29413 / PCC 7937)

     231        461  Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)

     232        460  Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)

     233        459  Cupriavidus pinatubonensis (strain JMP134 / LMG 1197) (Alcaligenes eutrophus) 

     234        459  Rhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)

     235        458  Enterococcus faecalis (strain ATCC 700802 / V583)

     236        455  Staphylococcus aureus (strain JH1)

     237        454  Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath)

     238        454  Ovis aries (Sheep)

     239        454  Xanthomonas oryzae pv. oryzae (strain MAFF 311018)

     240        453  Pseudomonas putida (strain W619)

     241        453  Rickettsia felis (strain ATCC VR-1525 / URRWXCal2) (Rickettsia azadi)

     242        452  Shewanella baltica (strain OS185)

     243        451  Aeromonas salmonicida (strain A449)

     244        450  Nicotiana tabacum (Common tobacco)

     245        449  Thermoanaerobacter tengcongensis  

     246        449  Staphylococcus aureus (strain JH9)

     247        449  Hahella chejuensis (strain KCTC 2396)

     248        449  Mycobacterium paratuberculosis (strain ATCC BAA-968 / K-10)

     249        448  Streptococcus mutans serotype c (strain ATCC 700610 / UA159)

     250        447  Vibrio fischeri (strain MJ11)





   

   2.3  Taxonomic distribution of the sequences



   



   Kingdom        sequences (% of the database)

    Archaea           18996 (  4%)

    Bacteria         328828 ( 61%)

    Eukaryota        175689 ( 33%)

    Viruses           16316 (  3%)





   Within Eukaryota:



   



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

     Human                  20253 ( 12%)           (  4%)

     Other Mammalia         45873 ( 26%)           (  8%)

     Other Vertebrata       17382 ( 10%)           (  3%)

     Viridiplantae          33735 ( 19%)           (  6%)

     Fungi                  30808 ( 18%)           (  6%)

     Insecta                 8679 (  5%)           (  2%)

     Nematoda                4292 (  2%)           (  1%)

     Other                  14667 (  8%)           (  3%)







3.  SEQUENCE SIZE



   Repartition of the sequences by size (excluding fragments)



               From   To  Number             From   To   Number

                  1-  50    9050             1001-1100     3739

                 51- 100   41362             1101-1200     2591

                101- 150   57636             1201-1300     2017

                151- 200   57709             1301-1400     1879

                201- 250   56462             1401-1500     1507

                251- 300   49949             1501-1600      730

                301- 350   50115             1601-1700      564

                351- 400   43368             1701-1800      467

                401- 450   35477             1801-1900      424

                451- 500   28559             1901-2000      352

                501- 550   20319             2001-2100      212

                551- 600   14580             2101-2200      287

                601- 650   12253             2201-2300      293

                651- 700    8834             2301-2400      174

                701- 750    7285             2401-2500      137

                751- 800    5177             >2500         1088

                801- 850    4534

                851- 900    5022

                901- 950    3871

                951-1000    2746



   





   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: 2313





   4.1 Table of the frequency of journal citations



        Journals cited 1x:  759

                       2x:  296

                       3x:  159

                       4x:  113

                       5x:   90

                       6x:   72

                       7x:   53

                       8x:   45

                       9x:   38

                      10x:   29

                  11- 20x:  182

                  21- 50x:  193

                  51-100x:   98

                    >100x:  186





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



   Nb    Citations   Journal name

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

    1        20985   Journal of Biological Chemistry

    2         9472   Proceedings of the National Academy of Sciences of the U.S.A.

    3         5671   Journal of Bacteriology

    4         5018   Biochemical and Biophysical Research Communications

    5         4596   Gene

    6         4555   Nucleic Acids Research

    7         4426   Biochemistry

    8         4343   FEBS Letters

    9         4200   The EMBO Journal

   10         3907   Molecular and Cellular Biology

   11         3692   Nature

   12         3549   Journal of Molecular Biology

   13         3240   European Journal of Biochemistry

   14         3211   Biochimica et Biophysica Acta

   15         3013   Cell

   16         2555   Journal of Virology

   17         2508   Genomics

   18         2484   Biochemical Journal

   19         2451   Science

   20         2036   Molecular Microbiology

   21         1857   Journal of Cell Biology

   22         1835   Plant Physiology

   23         1638   Plant Molecular Biology

   24         1588   The American Journal of Human Genetics

   25         1585   Genes and Development

   26         1533   Virology

   27         1496   Nature Genetics

   28         1449   Human Molecular Genetics

   29         1432   Oncogene

   30         1344   Molecular and General Genetics

   31         1334   Development

   32         1303   Human Mutation

   33         1293   Molecular Biology of the Cell

   34         1274   The Plant Cell

   35         1231   Journal of Biochemistry

   36         1188   Journal of Immunology

   37         1152   The Plant Journal

   38         1143   Molecular Cell

   39         1101   Genetics

   40         1067   Structure

   41         1025   Journal of General Virology

   42          968   Blood

   43          948   Infection and Immunity

   44          934   Journal of Cell Science

   45          926   Archives of Biochemistry and Biophysics

   46          856   Microbiology

   47          826   Developmental Biology

   48          806   Cancer Research

   49          789   Current Biology

   50          786   Yeast

   51          730   FEMS Microbiology Letters

   52          669   Acta Crystallographica, Section D

   53          652   Protein Science

   54          643   Journal of Neuroscience

   55          640   Toxicon

   56          628   Applied and Environmental Microbiology

   57          626   Human Genetics

   58          624   Nature Structural Biology

   59          622   Mechanisms of Development

   60          591   Neuron

   61          571   Journal of Clinical Investigation

   62          546   American Journal of Physiology

   63          539   Current Genetics

   64          537   PLoS ONE

   65          527   The Journal of Experimental Medicine

   66          491   Proteins

   67          482   Molecular Endocrinology

   68          479   Mammalian Genome

   69          464   Journal of Neurochemistry

   70          463   Plant and Cell Physiology

   71          456   Immunogenetics

   72          447   Nature Cell Biology

   73          445   Bioscience, Biotechnology, and Biochemistry

   74          443   The Journal of Clinical Endocrinology and Metabolism

   75          435   Endocrinology

   76          429   Molecular and Biochemical Parasitology

   77          409   Journal of Medical Genetics

   78          398   Journal of Molecular Evolution

   79          379   Molecular Biology and Evolution

   80          377   DNA and Cell Biology

   81          376   Experimental Cell Research

   82          365   DNA Sequence

   83          350   Peptides

   84          328   Brain Research. Molecular Brain Research

   85          325   Tissue Antigens

   86          324   Nature Structural and Molecular Biology

   87          322   Developmental Cell

   88          321   RNA

   89          320   Comparative Biochemistry and Physiology

   90          316   Antimicrobial Agents and Chemotherapy

   91          312   The FEBS Journal

   92          308   Journal of Investigative Dermatology

   93          302   Molecular Pharmacology

   94          300   Planta

   95          294   Biological Chemistry Hoppe-Seyler

   96          285   Biology of Reproduction

   97          280   Neurology

   98          279   Cytogenetics and Cell Genetics

   99          268   Developmental Dynamics

  100          267   Genome Research

  101          267   Virus Research

  102          256   Journal of General Microbiology

  103          256   Immunity

  104          254   Eukaryotic Cell

  105          253   EMBO Reports

  106          250   Biochimie

  107          244   Molecular Plant-Microbe Interactions

  108          242   Genes to Cells

  109          239   The FASEB Journal

  110          235   The New England Journal of Medicine

  111          231   European Journal of Immunology

  112          223   Annals of Neurology

  113          222   European Journal of Human Genetics

  114          218   Hoppe-Seyler's Zeitschrift fur Physiologische Chemie

  115          214   DNA Research

  116          213   Journal of the American Chemical Society

  117          211   Journal of Human Genetics

  118          202   Investigative Ophthalmology and Visual Science

  119          200   Archives of Microbiology

  120          196   Nature Immunology

  121          190   Acta Crystallographica, Section F

  122          190   Archives of Virology

  123          189   Journal of Cellular Biochemistry

  124          187   BMC Genomics

  125          186   American Journal of Medical Genetics. Part A

  126          185   Molecular and Cellular Endocrinology

  127          185   Journal of Experimental Botany

  128          183   Molecular Immunology

  129          181   Glycobiology

  130          177   Clinical Genetics

  131          176   Journal of Medicinal Chemistry

  132          173   Diabetes

  133          172   Insect Biochemistry and Molecular Biology

  134          168   American Journal of Medical Genetics

  135          168   Molecular Phylogenetics and Evolution

  136          165   Circulation Research

  137          164   International Journal of Cancer

  138          161   PLoS Genetics

  139          160   Molecular Genetics and Metabolism

  140          159   Molecular Reproduction and Development

  141          159   DNA

  142          157   Traffic

  143          155   Hemoglobin

  144          154   Bioorganicheskaia Khimiia

  145          153   Phytochemistry

  146          152   Molecular Genetics and Genomics

  147          152   Molecular and Cellular Neuroscience

  148          152   Biological Chemistry

  149          151   Protein Expression and Purification

  150          149   Cell Cycle





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)                      1038914                 1.92                                         

   Journal                            832072     416614      1.54       1                                 

   Submitted to EMBL/GenBank/DDBJ     197738     176776      0.37       2                                 

   Submitted to other databases         6884       6417      0.01       3                                 

   Book citation                         722        708     <0.01       4                                 

   Plant Gene Register                   579        567     <0.01       5                                 

   Thesis                                419        416     <0.01       6                                 

   Unpublished observations              304        300     <0.01       7                                 

   Patent                                190        187     <0.01       8                                 

   Worm Breeder's Gazette                  6          6     <0.01       9                                 



Total number of distinct authors cited in UniProtKB/Swiss-Prot: 334120



                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Comments (CC)                        2421533                 4.49                                         

   ALLERGEN                              529        529     <0.01      27                                 

   ALTERNATIVE PRODUCTS                21944      21944      0.04      13                                 

   BIOPHYSICOCHEMICAL PROPERTIES        4863       4863      0.01      23                                 

   BIOTECHNOLOGY                         343        341     <0.01      28                                 

   CATALYTIC ACTIVITY                 243368     220626      0.45       5                                 

   CAUTION                              9286       9113      0.02      18                                 

   COFACTOR                           107917      98710      0.20       7                                 

   DEVELOPMENTAL STAGE                  9812       9812      0.02      17                                 

   DISEASE                              5209       3490      0.01      22                                 

   DISRUPTION PHENOTYPE                 5528       5528      0.01      20                                 

   DOMAIN                              39116      34496      0.07      10                                 

   ENZYME REGULATION                   11096      11096      0.02      15                                 

   FUNCTION                           420997     403791      0.78       2                                 

   INDUCTION                           15153      15153      0.03      14                                 

   INTERACTION                         10056      10056      0.02      16                                 

   MASS SPECTROMETRY                    5514       4212      0.01      21                                 

   MISCELLANEOUS                       32737      30269      0.06      12                                 

   PATHWAY                            131914     119737      0.24       6                                 

   PHARMACEUTICAL                         92         92     <0.01      29                                 

   POLYMORPHISM                          889        836     <0.01      24                                 

   PTM                                 44355      34690      0.08       8                                 

   RNA EDITING                           627        627     <0.01      25                                 

   SEQUENCE CAUTION                    41077      41077      0.08       9                                 

   SIMILARITY                         640650     515169      1.19       1                                 

   SUBCELLULAR LOCATION               326799     320902      0.61       3                                 

   SUBUNIT                            243649     243649      0.45       4                                 

   TISSUE SPECIFICITY                  38542      38542      0.07      11                                 

   TOXIC DOSE                            551        516     <0.01      26                                 

   WEB RESOURCE                         8920       7125      0.02      19                                 



Total number of comment topics: 29





                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Features (FT)                        3697895                 6.85                                         

   ACT_SITE                           142163      86900      0.26       9                                 

   BINDING                            284691      76378      0.53       4                                 

   CA_BIND                              3920       1636      0.01      35                                 

   CARBOHYD                           107305      27481      0.20      15                                 

   CHAIN                              546537     533616      1.01       1                                 

   COILED                              20190      13867      0.04      26                                 

   COMPBIAS                            54326      28811      0.10      18                                 

   CONFLICT                           127547      44682      0.24      12                                 

   CROSSLNK                             6726       3899      0.01      34                                 

   DISULFID                           109115      29995      0.20      14                                 

   DNA_BIND                            10372       9447      0.02      31                                 

   DOMAIN                             160802      95587      0.30       8                                 

   HELIX                              178596      17444      0.33       6                                 

   INIT_MET                            14240      14240      0.03      27                                 

   INTRAMEM                             2139        919     <0.01      37                                 

   LIPID                               11906       7557      0.02      30                                 

   METAL                              315666      78015      0.58       3                                 

   MOD_RES                            166190      60771      0.31       7                                 

   MOTIF                               35724      23119      0.07      24                                 

   MUTAGEN                             43046      10004      0.08      22                                 

   NON_CONS                             2042        750     <0.01      38                                 

   NON_STD                               354        279     <0.01      39                                 

   NON_TER                             12205       9326      0.02      29                                 

   NP_BIND                            119429      73646      0.22      13                                 

   PEPTIDE                             10301       7025      0.02      32                                 

   PROPEP                              12663      10894      0.02      28                                 

   REGION                             131264      66956      0.24      10                                 

   REPEAT                              95054      14028      0.18      16                                 

   SIGNAL                              38209      38199      0.07      23                                 

   SITE                                46870      26193      0.09      19                                 

   STRAND                             187223      16481      0.35       5                                 

   TOPO_DOM                           130257      27038      0.24      11                                 

   TRANSIT                              8337       8233      0.02      33                                 

   TRANSMEM                           356080      73475      0.66       2                                 

   TURN                                43534      14127      0.08      21                                 

   UNSURE                               3298        707      0.01      36                                 

   VAR_SEQ                             44882      19089      0.08      20                                 

   VARIANT                             85343      16733      0.16      17                                 

   ZN_FING                             29349      12899      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)               16150034                29.92                                                           

   Allergome                            1496        936     <0.01     102      Protein family/group databases               

   ArachnoServer                         763        755     <0.01     112      Organism-specific databases                  

   ArrayExpress                        36119      36119      0.07      48      Gene expression databases                    

   Bgee                                38766      38766      0.07      46      Gene expression databases                    

   BindingDB                            5034       5034      0.01      86      Other                                        

   BioCyc                             229650     220600      0.43      23      Enzyme and pathway databases                 

   BRENDA                               4314       4304      0.01      93      Enzyme and pathway databases                 

   CAZy                                 7613       6853      0.01      76      Protein family/group databases               

   CGD                                   695        673     <0.01     113      Organism-specific databases                  

   ChEMBL                               5222       5222      0.01      84      Other                                        

   ChiTaRS                             12531      12526      0.02      71      Other                                        

   CleanEx                             30085      29444      0.06      52      Gene expression databases                    

   COMPLUYEAST-2DPAGE                     99         98     <0.01     126      2D gel databases                             

   ConoServer                            916        834     <0.01     108      Organism-specific databases                  

   CTD                                 70041      69368      0.13      40      Organism-specific databases                  

   CYGD                                 5596       5593      0.01      81      Organism-specific databases                  

   dictyBase                            4203       4086      0.01      95      Organism-specific databases                  

   DIP                                 14211      14120      0.03      69      Protein-protein interaction databases        

   DisProt                               398        395     <0.01     121      3D structure databases                       

   DMDM                                16758      16755      0.03      65      Polymorphism databases                       

   DNASU                               18684      18613      0.03      59      Protocols and materials databases            

   DOSAC-COBS-2DPAGE                     149        147     <0.01     125      2D gel databases                             

   DrugBank                             5319       1628      0.01      83      Other                                        

   EchoBASE                             4161       4161      0.01      96      Organism-specific databases                  

   EcoGene                              4292       4290      0.01      94      Organism-specific databases                  

   eggNOG                             430602     430602      0.80      10      Phylogenomic databases                       

   EMBL                               937464     528603      1.74       3      Sequence databases                           

   Ensembl                             81977      48525      0.15      36      Genome annotation databases                  

   EnsemblBacteria                    343235     325092      0.64      17      Genome annotation databases                  

   EnsemblFungi                        17548      17256      0.03      64      Genome annotation databases                  

   EnsemblMetazoa                      12358       9256      0.02      72      Genome annotation databases                  

   EnsemblPlants                       15861      14052      0.03      68      Genome annotation databases                  

   EnsemblProtists                      4498       4371      0.01      92      Genome annotation databases                  

   euHCVdb                                55         44     <0.01     127      Organism-specific databases                  

   EuPathDB                              574        504     <0.01     117      Organism-specific databases                  

   EvolutionaryTrace                   16549      16549      0.03      66      Other                                        

   FlyBase                              5886       5512      0.01      80      Organism-specific databases                  

   Gene3D                             331121     255877      0.61      19      Family and domain databases                  

   GeneCards                           20043      19755      0.04      57      Organism-specific databases                  

   GeneFarm                             3163       3152      0.01      98      Organism-specific databases                  

   GeneID                             498828     471763      0.92       6      Genome annotation databases                  

   GeneTree                            38141      38122      0.07      47      Phylogenomic databases                       

   Genevestigator                      67272      67272      0.12      42      Gene expression databases                    

   GenoList                             7071       7059      0.01      77      Organism-specific databases                  

   GenomeReviews                      377673     358012      0.70      14      Genome annotation databases                  

   GenomeRNAi                          21281      21281      0.04      55      Other                                        

   GermOnline                          41895      41321      0.08      45      Gene expression databases                    

   GlycoSuiteDB                          272        272     <0.01     124      PTM databases                                

   GO                                2439691     509828      4.52       1      Ontologies                                   

   Gramene                              5997       5997      0.01      79      Organism-specific databases                  

   H-InvDB                              5593       4772      0.01      82      Organism-specific databases                  

   HAMAP                              315436     315142      0.58      20      Family and domain databases                  

   HGNC                                19848      19681      0.04      58      Organism-specific databases                  

   HOGENOM                            385274     385274      0.71      13      Phylogenomic databases                       

   HOVERGEN                            75543      75543      0.14      38      Phylogenomic databases                       

   HPA                                 17639      13723      0.03      63      Organism-specific databases                  

   HSSP                                30635      30635      0.06      51      3D structure databases                       

   InParanoid                          69882      69882      0.13      41      Phylogenomic databases                       

   IntAct                              34700      34700      0.06      49      Protein-protein interaction databases        

   InterPro                          1763169     516536      3.27       2      Family and domain databases                  

   IPI                                 97072      67679      0.18      32      Sequence databases                           

   KEGG                               481136     449951      0.89       8      Genome annotation databases                  

   KO                                 375359     374639      0.70      15      Phylogenomic databases                       

   LegioList                             765        763     <0.01     111      Organism-specific databases                  

   Leproma                               671        668     <0.01     114      Organism-specific databases                  

   MaizeGDB                              499        494     <0.01     119      Organism-specific databases                  

   MEROPS                              11870      11870      0.02      74      Protein family/group databases               

   MGI                                 16516      16470      0.03      67      Organism-specific databases                  

   MIM                                 17980      13646      0.03      61      Organism-specific databases                  

   MINT                                17648      17648      0.03      62      Protein-protein interaction databases        

   mycoCLAP                              282        277     <0.01     123      Protein family/group databases               

   NextBio                             70683      70683      0.13      39      Other                                        

   neXtProt                            20100      20100      0.04      56      Organism-specific databases                  

   OGP                                   377        377     <0.01     122      2D gel databases                             

   OMA                                394525     394525      0.73      12      Phylogenomic databases                       

   Orphanet                             4682       2650      0.01      90      Organism-specific databases                  

   OrthoDB                             78208      78208      0.14      37      Phylogenomic databases                       

   PANTHER                            199999     186530      0.37      25      Family and domain databases                  

   Pathway_Interaction_DB               4568       1666      0.01      91      Enzyme and pathway databases                 

   PATRIC                             308905     308876      0.57      21      Genome annotation databases                  

   PaxDb                               66653      66653      0.12      43      Proteomic databases                          

   PDB                                 92792      19255      0.17      35      3D structure databases                       

   PDBsum                              92792      19255      0.17      34      3D structure databases                       

   PeptideAtlas                         5163       5163      0.01      85      Proteomic databases                          

   PeroxiBase                            770        754     <0.01     110      Protein family/group databases               

   Pfam                               718497     498260      1.33       4      Family and domain databases                  

   PharmGKB                            18374      18350      0.03      60      Organism-specific databases                  

   PhosphoSite                         33568      33568      0.06      50      PTM databases                                

   PhosSite                              631        619     <0.01     115      PTM databases                                

   PhylomeDB                           27400      27400      0.05      54      Phylogenomic databases                       

   PIR                                118615     108470      0.22      29      Sequence databases                           

   PIRSF                               99210      99084      0.18      31      Family and domain databases                  

   PMAP-CutDB                           1457       1457     <0.01     103      Other                                        

   PomBase                              5016       4959      0.01      87      Organism-specific databases                  

   PptaseDB                               38         38     <0.01     128      Protein family/group databases               

   PRIDE                              110711     110711      0.21      30      Proteomic databases                          

   PRINTS                             137219     120205      0.25      27      Family and domain databases                  

   ProDom                              29301      29122      0.05      53      Family and domain databases                  

   ProMEX                                778        778     <0.01     109      Proteomic databases                          

   PROSITE                            482334     304235      0.89       7      Family and domain databases                  

   ProtClustDB                        343831     343831      0.64      16      Phylogenomic databases                       

   ProteinModelPortal                 431829     431829      0.80       9      3D structure databases                       

   PseudoCAP                            1251       1242     <0.01     105      Organism-specific databases                  

   Reactome                            13102       7882      0.02      70      Enzyme and pathway databases                 

   REBASE                                404        404     <0.01     120      Protein family/group databases               

   RefSeq                             526139     472071      0.97       5      Sequence databases                           

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

   RGD                                  7753       7749      0.01      75      Organism-specific databases                  

   SABIO-RK                             2465       2465     <0.01     100      Enzyme and pathway databases                 

   SGD                                  6640       6635      0.01      78      Organism-specific databases                  

   SMART                              167562     125437      0.31      26      Family and domain databases                  

   SMR                                219107     219107      0.41      24      3D structure databases                       

   STRING                             396434     396434      0.73      11      Protein-protein interaction databases        

   SUPFAM                             331160     262777      0.61      18      Family and domain databases                  

   SWISS-2DPAGE                         1182       1181     <0.01     106      2D gel databases                             

   TAIR                                11988      11935      0.02      73      Organism-specific databases                  

   TCDB                                 3666       3650      0.01      97      Protein family/group databases               

   TIGRFAMs                           289843     269469      0.54      22      Family and domain databases                  

   TubercuList                          2035       1999     <0.01     101      Organism-specific databases                  

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

   UCSC                                52034      39899      0.10      44      Genome annotation databases                  

   UniGene                             97057      88126      0.18      33      Sequence databases                           

   UniPathway                         131801     119626      0.24      28      Enzyme and pathway databases                 

   VectorBase                            606        588     <0.01     116      Genome annotation databases                  

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

   WormBase                             4879       3934      0.01      88      Organism-specific databases                  

   Xenbase                              4731       4726      0.01      89      Organism-specific databases                  

   ZFIN                                 2795       2795      0.01      99      Organism-specific databases                  



Total number of cross-referenced databases: 128



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) 6.56

   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) 5.96   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



4461 entries are encoded on a mitochondrion, and 3713 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: 74627