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         UniProtKB/Swiss-Prot protein knowledgebase release 2013_05 statistics





1.  INTRODUCTION



Release 2013_05 of 01-May-13 of UniProtKB/Swiss-Prot contains 540052 sequence entries,

comprising 191770152 amino acids abstracted from 218790 references. 



226 sequences have been added since release 2013_04, the sequence data of

27 existing entries has been updated and the annotations of

414816 entries have been revised.



Number of fragments: 9067

Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 34255





Protein existence (PE):           entries     %



1: Evidence at protein level        78950   14.6%

2: Evidence at transcript level     64265   11.9%

3: Inferred from homology          379222   70.2%

4: Predicted                        15721    2.9%

5: Uncertain                         1894    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: 12980



   The first twenty species represent 113365 sequences:    21 % of the total

   number of entries.





   2.1 Table of the frequency of occurrence of species



        Species represented 1x: 5435

                            2x: 1886

                            3x:  986

                            4x:  640

                            5x:  470

                            6x:  387

                            7x:  285

                            8x:  220

                            9x:  202

                           10x:  120

                       11- 20x:  692

                       21- 50x:  404

                       51-100x:  212

                         >100x: 1041





   2.2  Table of the most represented species



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

  Number  Frequency  Species

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

       1      20255  Homo sapiens (Human)

       2      16612  Mus musculus (Mouse)

       3      12019  Arabidopsis thaliana (Mouse-ear cress)

       4       7853  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       3425  Caenorhabditis elegans

      12       3365  Xenopus laevis (African clawed frog)

      13       3195  Drosophila melanogaster (Fruit fly)

      14       3031  Oryza sativa subsp. japonica (Rice)

      15       2883  Danio rerio (Zebrafish) (Brachydanio rerio)

      16       2253  Gallus gallus (Chicken)

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

      18       2022  Mycobacterium tuberculosis

      19       2015  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       1692  Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)

      24       1684  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  Escherichia coli O6:K15:H31 (strain 536 / UPEC)

      44        889  Staphylococcus aureus (strain MSSA476)

      45        889  Oryctolagus cuniculus (Rabbit)

      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        775  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        736  Bacillus anthracis

      83        736  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        720  Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)

      89        717  Vibrio vulnificus (strain YJ016)

      90        716  Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7)

      91        715  Yersinia pestis bv. Antiqua (strain Nepal516)

      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  Bradyrhizobium japonicum (strain USDA 110)

     120        656  Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) 

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

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

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

     210        480  Acinetobacter sp. (strain ADP1)

     211        479  Pyrococcus horikoshii 

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

     250        448  Streptococcus mutans serotype c (strain ATCC 700610 / UA159)





   

   2.3  Taxonomic distribution of the sequences



   



   Kingdom        sequences (% of the database)

    Archaea           19010 (  4%)

    Bacteria         328865 ( 61%)

    Eukaryota        175860 ( 33%)

    Viruses           16317 (  3%)





   Within Eukaryota:



   



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

     Human                  20256 ( 12%)           (  4%)

     Other Mammalia         45890 ( 26%)           (  8%)

     Other Vertebrata       17402 ( 10%)           (  3%)

     Viridiplantae          33813 ( 19%)           (  6%)

     Fungi                  30827 ( 18%)           (  6%)

     Insecta                 8686 (  5%)           (  2%)

     Nematoda                4300 (  2%)           (  1%)

     Other                  14686 (  8%)           (  3%)







3.  SEQUENCE SIZE



   Repartition of the sequences by size (excluding fragments)



               From   To  Number             From   To   Number

                  1-  50    9051             1001-1100     3742

                 51- 100   41384             1101-1200     2592

                101- 150   57640             1201-1300     2020

                151- 200   57730             1301-1400     1881

                201- 250   56476             1401-1500     1507

                251- 300   49964             1501-1600      730

                301- 350   50142             1601-1700      567

                351- 400   43390             1701-1800      467

                401- 450   35483             1801-1900      426

                451- 500   28578             1901-2000      352

                501- 550   20328             2001-2100      212

                551- 600   14602             2101-2200      287

                601- 650   12258             2201-2300      293

                651- 700    8838             2301-2400      176

                701- 750    7289             2401-2500      138

                751- 800    5180             >2500         1088

                801- 850    4534

                851- 900    5023

                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: 2320





   4.1 Table of the frequency of journal citations



        Journals cited 1x:  757

                       2x:  303

                       3x:  156

                       4x:  114

                       5x:   90

                       6x:   74

                       7x:   54

                       8x:   46

                       9x:   36

                      10x:   31

                  11- 20x:  182

                  21- 50x:  193

                  51-100x:   97

                    >100x:  187





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



   Nb    Citations   Journal name

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

    1        21058   Journal of Biological Chemistry

    2         9506   Proceedings of the National Academy of Sciences of the U.S.A.

    3         5689   Journal of Bacteriology

    4         5031   Biochemical and Biophysical Research Communications

    5         4600   Gene

    6         4561   Nucleic Acids Research

    7         4441   Biochemistry

    8         4353   FEBS Letters

    9         4215   The EMBO Journal

   10         3916   Molecular and Cellular Biology

   11         3705   Nature

   12         3565   Journal of Molecular Biology

   13         3243   European Journal of Biochemistry

   14         3215   Biochimica et Biophysica Acta

   15         3028   Cell

   16         2572   Journal of Virology

   17         2509   Genomics

   18         2494   Biochemical Journal

   19         2460   Science

   20         2046   Molecular Microbiology

   21         1870   Journal of Cell Biology

   22         1846   Plant Physiology

   23         1641   Plant Molecular Biology

   24         1591   The American Journal of Human Genetics

   25         1590   Genes and Development

   26         1536   Virology

   27         1505   Nature Genetics

   28         1451   Human Molecular Genetics

   29         1434   Oncogene

   30         1345   Molecular and General Genetics

   31         1336   Development

   32         1311   Molecular Biology of the Cell

   33         1307   Human Mutation

   34         1280   The Plant Cell

   35         1238   Journal of Biochemistry

   36         1191   Journal of Immunology

   37         1165   The Plant Journal

   38         1154   Molecular Cell

   39         1101   Genetics

   40         1075   Structure

   41         1026   Journal of General Virology

   42          973   Blood

   43          948   Infection and Immunity

   44          941   Journal of Cell Science

   45          927   Archives of Biochemistry and Biophysics

   46          859   Microbiology

   47          831   Developmental Biology

   48          808   Cancer Research

   49          793   Current Biology

   50          786   Yeast

   51          734   FEMS Microbiology Letters

   52          674   Acta Crystallographica, Section D

   53          655   Protein Science

   54          647   Journal of Neuroscience

   55          643   Toxicon

   56          636   Applied and Environmental Microbiology

   57          626   Human Genetics

   58          626   Nature Structural Biology

   59          622   Mechanisms of Development

   60          592   Neuron

   61          575   Journal of Clinical Investigation

   62          563   PLoS ONE

   63          546   American Journal of Physiology

   64          539   Current Genetics

   65          528   The Journal of Experimental Medicine

   66          495   Proteins

   67          484   Molecular Endocrinology

   68          479   Mammalian Genome

   69          469   Plant and Cell Physiology

   70          467   Journal of Neurochemistry

   71          459   Immunogenetics

   72          448   Nature Cell Biology

   73          447   Bioscience, Biotechnology, and Biochemistry

   74          443   The Journal of Clinical Endocrinology and Metabolism

   75          435   Endocrinology

   76          429   Molecular and Biochemical Parasitology

   77          416   Journal of Medical Genetics

   78          398   Journal of Molecular Evolution

   79          379   Molecular Biology and Evolution

   80          378   Experimental Cell Research

   81          377   DNA and Cell Biology

   82          365   DNA Sequence

   83          351   Peptides

   84          328   Brain Research. Molecular Brain Research

   85          325   Nature Structural and Molecular Biology

   86          325   Tissue Antigens

   87          324   Developmental Cell

   88          322   RNA

   89          320   Comparative Biochemistry and Physiology

   90          316   Antimicrobial Agents and Chemotherapy

   91          315   The FEBS Journal

   92          308   Journal of Investigative Dermatology

   93          304   Molecular Pharmacology

   94          302   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          257   Journal of General Microbiology

  103          257   Eukaryotic Cell

  104          257   Immunity

  105          254   EMBO Reports

  106          253   Biochimie

  107          245   Genes to Cells

  108          244   Molecular Plant-Microbe Interactions

  109          239   The FASEB Journal

  110          237   The New England Journal of Medicine

  111          232   European Journal of Immunology

  112          224   Annals of Neurology

  113          222   European Journal of Human Genetics

  114          218   Hoppe-Seyler's Zeitschrift fur Physiologische Chemie

  115          215   DNA Research

  116          215   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   Acta Crystallographica, Section F

  121          196   Nature Immunology

  122          190   Archives of Virology

  123          189   Journal of Experimental Botany

  124          189   Journal of Cellular Biochemistry

  125          187   BMC Genomics

  126          187   American Journal of Medical Genetics. Part A

  127          186   Molecular and Cellular Endocrinology

  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          165   International Journal of Cancer

  138          164   PLoS Genetics

  139          160   Molecular Genetics and Metabolism

  140          159   Molecular Reproduction and Development

  141          159   DNA

  142          158   Traffic

  143          156   Phytochemistry

  144          155   Hemoglobin

  145          154   Bioorganicheskaia Khimiia

  146          153   Molecular and Cellular Neuroscience

  147          153   Biological Chemistry

  148          152   Protein Expression and Purification

  149          152   Molecular Genetics and Genomics

  150          150   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)                      1040803                 1.93                                         

   Journal                            834398     417458      1.55       1                                 

   Submitted to EMBL/GenBank/DDBJ     197275     176260      0.37       2                                 

   Submitted to other databases         6905       6433      0.01       3                                 

   Book citation                         724        710     <0.01       4                                 

   Plant Gene Register                   581        569     <0.01       5                                 

   Thesis                                420        417     <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: 335254



                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Comments (CC)                        2424249                 4.49                                         

   ALLERGEN                              529        529     <0.01      27                                 

   ALTERNATIVE PRODUCTS                21995      21995      0.04      13                                 

   BIOPHYSICOCHEMICAL PROPERTIES        4926       4926      0.01      23                                 

   BIOTECHNOLOGY                         345        343     <0.01      28                                 

   CATALYTIC ACTIVITY                 243525     220732      0.45       5                                 

   CAUTION                              9322       9149      0.02      18                                 

   COFACTOR                           108080      98779      0.20       7                                 

   DEVELOPMENTAL STAGE                  9848       9848      0.02      17                                 

   DISEASE                              5235       3508      0.01      22                                 

   DISRUPTION PHENOTYPE                 5624       5624      0.01      20                                 

   DOMAIN                              39417      34760      0.07      10                                 

   ENZYME REGULATION                   11155      11155      0.02      15                                 

   FUNCTION                           421407     404176      0.78       2                                 

   INDUCTION                           15203      15203      0.03      14                                 

   INTERACTION                         10143      10143      0.02      16                                 

   MASS SPECTROMETRY                    5526       4223      0.01      21                                 

   MISCELLANEOUS                       32794      30321      0.06      12                                 

   PATHWAY                            131615     119772      0.24       6                                 

   PHARMACEUTICAL                         92         92     <0.01      29                                 

   POLYMORPHISM                          892        839     <0.01      24                                 

   PTM                                 44440      34768      0.08       8                                 

   RNA EDITING                           627        627     <0.01      25                                 

   SEQUENCE CAUTION                    41129      41129      0.08       9                                 

   SIMILARITY                         641125     515434      1.19       1                                 

   SUBCELLULAR LOCATION               327068     321168      0.61       3                                 

   SUBUNIT                            244051     244051      0.45       4                                 

   TISSUE SPECIFICITY                  38665      38665      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)                        3706027                 6.86                                         

   ACT_SITE                           142292      86996      0.26       9                                 

   BINDING                            286709      77052      0.53       4                                 

   CA_BIND                              3914       1633      0.01      35                                 

   CARBOHYD                           107323      27491      0.20      15                                 

   CHAIN                              546770     533837      1.01       1                                 

   COILED                              20247      13903      0.04      26                                 

   COMPBIAS                            54364      28834      0.10      18                                 

   CONFLICT                           127739      44750      0.24      12                                 

   CROSSLNK                             6778       3916      0.01      34                                 

   DISULFID                           109296      30025      0.20      14                                 

   DNA_BIND                            10373       9448      0.02      31                                 

   DOMAIN                             161029      95770      0.30       8                                 

   HELIX                              179812      17555      0.33       6                                 

   INIT_MET                            14247      14247      0.03      27                                 

   INTRAMEM                             2139        919     <0.01      37                                 

   LIPID                               11919       7560      0.02      30                                 

   METAL                              315972      78102      0.59       3                                 

   MOD_RES                            166391      60821      0.31       7                                 

   MOTIF                               35789      23182      0.07      24                                 

   MUTAGEN                             43355      10073      0.08      22                                 

   NON_CONS                             2042        750     <0.01      38                                 

   NON_STD                               354        279     <0.01      39                                 

   NON_TER                             12212       9333      0.02      29                                 

   NP_BIND                            119716      73692      0.22      13                                 

   PEPTIDE                             10303       7027      0.02      32                                 

   PROPEP                              12669      10900      0.02      28                                 

   REGION                             131751      67214      0.24      10                                 

   REPEAT                              95117      14039      0.18      16                                 

   SIGNAL                              38250      38240      0.07      23                                 

   SITE                                46943      26229      0.09      19                                 

   STRAND                             188432      16583      0.35       5                                 

   TOPO_DOM                           130298      27048      0.24      11                                 

   TRANSIT                              8345       8241      0.02      33                                 

   TRANSMEM                           356212      73525      0.66       2                                 

   TURN                                43812      14215      0.08      21                                 

   UNSURE                               3298        707      0.01      36                                 

   VAR_SEQ                             45036      19138      0.08      20                                 

   VARIANT                             85405      16740      0.16      17                                 

   ZN_FING                             29374      12907      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)               15789332                29.24                                                           

   Allergome                            1496        936     <0.01     101      Protein family/group databases               

   ArachnoServer                         763        755     <0.01     111      Organism-specific databases                  

   ArrayExpress                        36158      36158      0.07      47      Gene expression databases                    

   Bgee                                38772      38772      0.07      45      Gene expression databases                    

   BindingDB                            5034       5034      0.01      85      Other                                        

   BioCyc                             229675     220622      0.43      22      Enzyme and pathway databases                 

   BRENDA                               4318       4308      0.01      92      Enzyme and pathway databases                 

   CAZy                                 7626       6866      0.01      75      Protein family/group databases               

   CGD                                   700        678     <0.01     112      Organism-specific databases                  

   ChEMBL                               5222       5222      0.01      83      Other                                        

   ChiTaRS                             12531      12526      0.02      70      Other                                        

   CleanEx                             30085      29444      0.06      51      Gene expression databases                    

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

   ConoServer                            916        834     <0.01     107      Organism-specific databases                  

   CTD                                 70094      69421      0.13      39      Organism-specific databases                  

   CYGD                                 5596       5593      0.01      80      Organism-specific databases                  

   dictyBase                            4203       4086      0.01      94      Organism-specific databases                  

   DIP                                 14215      14124      0.03      68      Protein-protein interaction databases        

   DisProt                               398        395     <0.01     120      3D structure databases                       

   DMDM                                16758      16755      0.03      64      Polymorphism databases                       

   DNASU                               18692      18621      0.03      59      Protocols and materials databases            

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

   DrugBank                             5319       1628      0.01      82      Other                                        

   EchoBASE                             4161       4161      0.01      95      Organism-specific databases                  

   EcoGene                              4292       4290      0.01      93      Organism-specific databases                  

   eggNOG                             430681     430681      0.80      10      Phylogenomic databases                       

   EMBL                               940153     528820      1.74       3      Sequence databases                           

   Ensembl                             83759      48603      0.16      35      Genome annotation databases                  

   EnsemblBacteria                    343256     325107      0.64      16      Genome annotation databases                  

   EnsemblFungi                        17551      17259      0.03      63      Genome annotation databases                  

   EnsemblMetazoa                      12384       9269      0.02      71      Genome annotation databases                  

   EnsemblPlants                       15942      14108      0.03      67      Genome annotation databases                  

   EnsemblProtists                      4499       4372      0.01      91      Genome annotation databases                  

   euHCVdb                                55         44     <0.01     126      Organism-specific databases                  

   EuPathDB                              574        504     <0.01     116      Organism-specific databases                  

   EvolutionaryTrace                   16566      16566      0.03      65      Other                                        

   FlyBase                              5893       5519      0.01      79      Organism-specific databases                  

   Gene3D                             334114     258223      0.62      17      Family and domain databases                  

   GeneCards                           20042      19754      0.04      56      Organism-specific databases                  

   GeneFarm                             3181       3170      0.01      97      Organism-specific databases                  

   GeneID                             502043     472012      0.93       6      Genome annotation databases                  

   GeneTree                            38194      38175      0.07      46      Phylogenomic databases                       

   Genevestigator                      67319      67319      0.12      41      Gene expression databases                    

   GenoList                             7071       7059      0.01      76      Organism-specific databases                  

   GenomeRNAi                          21289      21289      0.04      54      Other                                        

   GermOnline                          41894      41320      0.08      44      Gene expression databases                    

   GlycoSuiteDB                          272        272     <0.01     123      PTM databases                                

   GO                                2437359     510329      4.51       1      Ontologies                                   

   Gramene                              5999       5999      0.01      78      Organism-specific databases                  

   H-InvDB                              5594       4773      0.01      81      Organism-specific databases                  

   HAMAP                              315891     315488      0.58      19      Family and domain databases                  

   HGNC                                19852      19684      0.04      57      Organism-specific databases                  

   HOGENOM                            385346     385346      0.71      13      Phylogenomic databases                       

   HOVERGEN                            75559      75559      0.14      37      Phylogenomic databases                       

   HPA                                 19093      14742      0.04      58      Organism-specific databases                  

   HSSP                                30657      30657      0.06      50      3D structure databases                       

   InParanoid                          69937      69937      0.13      40      Phylogenomic databases                       

   IntAct                              34853      34853      0.06      48      Protein-protein interaction databases        

   InterPro                          1767940     516786      3.27       2      Family and domain databases                  

   IPI                                 97233      67748      0.18      31      Sequence databases                           

   KEGG                               480810     450809      0.89       8      Genome annotation databases                  

   KO                                 375936     375200      0.70      14      Phylogenomic databases                       

   LegioList                             765        763     <0.01     110      Organism-specific databases                  

   Leproma                               671        668     <0.01     113      Organism-specific databases                  

   MaizeGDB                              499        494     <0.01     118      Organism-specific databases                  

   MEROPS                              11871      11871      0.02      73      Protein family/group databases               

   MGI                                 16525      16479      0.03      66      Organism-specific databases                  

   MIM                                 18052      13687      0.03      61      Organism-specific databases                  

   MINT                                17651      17651      0.03      62      Protein-protein interaction databases        

   mycoCLAP                              282        277     <0.01     122      Protein family/group databases               

   NextBio                             70842      70842      0.13      38      Other                                        

   neXtProt                            20099      20099      0.04      55      Organism-specific databases                  

   OGP                                   377        377     <0.01     121      2D gel databases                             

   OMA                                394629     394629      0.73      12      Phylogenomic databases                       

   Orphanet                             4682       2650      0.01      89      Organism-specific databases                  

   OrthoDB                             78224      78224      0.14      36      Phylogenomic databases                       

   PANTHER                            201845     188239      0.37      24      Family and domain databases                  

   Pathway_Interaction_DB               4568       1666      0.01      90      Enzyme and pathway databases                 

   PATRIC                             308924     308895      0.57      20      Genome annotation databases                  

   PaxDb                               66671      66671      0.12      42      Proteomic databases                          

   PDB                                 93931      19359      0.17      34      3D structure databases                       

   PDBsum                              93931      19359      0.17      33      3D structure databases                       

   PeptideAtlas                         5163       5163      0.01      84      Proteomic databases                          

   PeroxiBase                            770        754     <0.01     109      Protein family/group databases               

   Pfam                               721728     498702      1.34       4      Family and domain databases                  

   PharmGKB                            18374      18350      0.03      60      Organism-specific databases                  

   PhosphoSite                         33567      33567      0.06      49      PTM databases                                

   PhosSite                              659        647     <0.01     114      PTM databases                                

   PhylomeDB                           27443      27443      0.05      53      Phylogenomic databases                       

   PIR                                118663     108514      0.22      28      Sequence databases                           

   PIRSF                               99444      99257      0.18      30      Family and domain databases                  

   PMAP-CutDB                           1457       1457     <0.01     102      Other                                        

   PomBase                              5016       4959      0.01      86      Organism-specific databases                  

   PptaseDB                               40         40     <0.01     127      Protein family/group databases               

   PRIDE                              111011     111011      0.21      29      Proteomic databases                          

   PRINTS                             137286     120246      0.25      26      Family and domain databases                  

   ProDom                              29303      29124      0.05      52      Family and domain databases                  

   ProMEX                                819        819     <0.01     108      Proteomic databases                          

   PROSITE                            482575     304356      0.89       7      Family and domain databases                  

   ProtClustDB                        343905     343905      0.64      15      Phylogenomic databases                       

   ProteinModelPortal                 431920     431920      0.80       9      3D structure databases                       

   PseudoCAP                            1251       1242     <0.01     104      Organism-specific databases                  

   Reactome                            13102       7882      0.02      69      Enzyme and pathway databases                 

   REBASE                                403        403     <0.01     119      Protein family/group databases               

   RefSeq                             527685     472309      0.98       5      Sequence databases                           

   REPRODUCTION-2DPAGE                  1257       1036     <0.01     103      2D gel databases                             

   RGD                                  7767       7763      0.01      74      Organism-specific databases                  

   SABIO-RK                             2541       2541     <0.01      99      Enzyme and pathway databases                 

   SGD                                  6640       6635      0.01      77      Organism-specific databases                  

   SMART                              167667     125512      0.31      25      Family and domain databases                  

   SMR                                207521     207521      0.38      23      3D structure databases                       

   STRING                             396501     396501      0.73      11      Protein-protein interaction databases        

   SUPFAM                             332655     264190      0.62      18      Family and domain databases                  

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

   TAIR                                12036      11983      0.02      72      Organism-specific databases                  

   TCDB                                 3666       3650      0.01      96      Protein family/group databases               

   TIGRFAMs                           289996     269517      0.54      21      Family and domain databases                  

   TubercuList                          2036       2000     <0.01     100      Organism-specific databases                  

   UCD-2DPAGE                            509        500     <0.01     117      2D gel databases                             

   UCSC                                52057      39922      0.10      43      Genome annotation databases                  

   UniGene                             97163      88211      0.18      32      Sequence databases                           

   UniPathway                         131502     119661      0.24      27      Enzyme and pathway databases                 

   VectorBase                            606        588     <0.01     115      Genome annotation databases                  

   World-2DPAGE                          921        910     <0.01     106      2D gel databases                             

   WormBase                             4891       3942      0.01      87      Organism-specific databases                  

   Xenbase                              4734       4729      0.01      88      Organism-specific databases                  

   ZFIN                                 2798       2798      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) 6.56

   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 3716 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: 74712