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         UniProtKB/Swiss-Prot protein knowledgebase release 2013_09 statistics





1.  INTRODUCTION



Release 2013_09 of 18-Sep-13 of UniProtKB/Swiss-Prot contains 540958 sequence entries,

comprising 192206270 amino acids abstracted from 221942 references. 



245 sequences have been added since release 2013_08, the sequence data of

107 existing entries has been updated and the annotations of

100864 entries have been revised.



Number of fragments: 9069

Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 35481





Protein existence (PE):           entries     %



1: Evidence at protein level        79954   14.8%

2: Evidence at transcript level     63922   11.8%

3: Inferred from homology          379478   70.1%

4: Predicted                        15702    2.9%

5: Uncertain                         1902    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: 13011



   The first twenty species represent 113812 sequences:    21 % of the total

   number of entries.





   2.1 Table of the frequency of occurrence of species



        Species represented 1x: 5430

                            2x: 1892

                            3x:  991

                            4x:  645

                            5x:  470

                            6x:  393

                            7x:  286

                            8x:  216

                            9x:  211

                           10x:  122

                       11- 20x:  695

                       21- 50x:  407

                       51-100x:  212

                         >100x: 1041





   2.2  Table of the most represented species



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

  Number  Frequency  Species

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

       1      20271  Homo sapiens (Human)

       2      16625  Mus musculus (Mouse)

       3      12327  Arabidopsis thaliana (Mouse-ear cress)

       4       7863  Rattus norvegicus (Rat)

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

       6       5980  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       3440  Caenorhabditis elegans

      12       3371  Xenopus laevis (African clawed frog)

      13       3199  Drosophila melanogaster (Fruit fly)

      14       3074  Oryza sativa subsp. japonica (Rice)

      15       2898  Danio rerio (Zebrafish) (Brachydanio rerio)

      16       2256  Gallus gallus (Chicken)

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

      18       2033  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       1694  Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)

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

      25       1679  Shigella flexneri

      26       1413  Sus scrofa (Pig)

      27       1346  Salmonella typhi

      28       1247  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       1015  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        905  Kluyveromyces lactis   

      41        899  Staphylococcus aureus (strain COL)

      42        895  Staphylococcus aureus (strain MW2)

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

      44        889  Staphylococcus aureus (strain MSSA476)

      45        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        862  Candida glabrata   

      52        841  Escherichia coli O9:H4 (strain HS)

      53        836  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        757  Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)

      76        756  Escherichia coli (strain SE11)

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

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

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

      80        745  Photorhabdus luminescens subsp. laumondii (strain TT01)

      81        740  Staphylococcus aureus (strain NCTC 8325)

      82        739  Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)

      83        736  Bacillus anthracis

      84        736  Bacillus halodurans 

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

      86        733  Vibrio vulnificus (strain CMCP6)

      87        731  Escherichia coli O81 (strain ED1a)

      88        721  Salmonella enteritidis PT4 (strain P125109)

      89        720  Zea mays (Maize)

      90        717  Vibrio vulnificus (strain YJ016)

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

      92        715  Yersinia pestis bv. Antiqua (strain Nepal516)

      93        714  Salmonella paratyphi A (strain AKU_12601)

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

      95        713  Enterobacter sp. (strain 638)

      96        713  Salmonella agona (strain SL483)

      97        713  Escherichia coli O1:K1 / APEC

      98        713  Salmonella newport (strain SL254)

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

     100        712  Salmonella schwarzengrund (strain CVM19633)

     101        711  Yersinia pestis bv. Antiqua (strain Antiqua)

     102        710  Salmonella heidelberg (strain SL476)

     103        702  Salmonella dublin (strain CT_02021853)

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

     105        696  Klebsiella pneumoniae (strain 342)

     106        695  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        658  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        624  Oryza sativa subsp. indica (Rice)

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

     133        616  Treponema pallidum (strain Nichols)

     134        614  Methanothermobacter thermautotrophicus  

     135        613  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  Helicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99)

     156        566  Pseudomonas syringae pv. syringae (strain B728a)

     157        565  Caulobacter crescentus (strain ATCC 19089 / CB15)

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

     159        564  Vibrio fischeri (strain ATCC 700601 / ES114)

     160        564  Pseudomonas aeruginosa (strain UCBPP-PA14)

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

     162        561  Bacillus cereus (strain ZK / E33L)

     163        557  Clostridium acetobutylicum 

     164        556  Xanthomonas axonopodis pv. citri (strain 306)

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

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

     167        552  Pseudomonas fluorescens (strain Pf0-1)

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

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

     170        533  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        523  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        502  Deinococcus radiodurans 

     191        500  Pseudomonas entomophila (strain L48)

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

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

     194        496  Bacillus clausii (strain KSM-K16)

     195        495  Burkholderia pseudomallei (strain K96243)

     196        495  Haemophilus influenzae (strain 86-028NP)

     197        494  Proteus mirabilis (strain HI4320)

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

     199        492  Bacillus amyloliquefaciens (strain FZB42)

     200        491  Xanthomonas campestris pv. campestris (strain 8004)

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

     202        487  Shewanella sp. (strain MR-7)

     203        486  Mannheimia succiniciproducens (strain MBEL55E)

     204        484  Pseudomonas aeruginosa (strain LESB58)

     205        484  Staphylococcus aureus (strain Mu3 / ATCC 700698)

     206        484  Shewanella sp. (strain MR-4)

     207        483  Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195)

     208        482  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        471  Methanosarcina mazei  

     219        469  Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)

     220        468  Pyrococcus abyssi (strain GE5 / Orsay)

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

     222        468  Clostridium perfringens (strain 13 / Type A)

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

     224        466  Shewanella frigidimarina (strain NCIMB 400)

     225        466  Pseudomonas putida (strain GB-1)

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

     227        464  Aeromonas hydrophila subsp. hydrophila (strain ATCC 7966 / NCIB 9240)

     228        463  Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)

     229        463  Shewanella sp. (strain ANA-3)

     230        462  Burkholderia mallei (strain ATCC 23344)

     231        462  Anabaena variabilis (strain ATCC 29413 / PCC 7937)

     232        461  Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)

     233        460  Rhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)

     234        459  Cupriavidus pinatubonensis (strain JMP134 / LMG 1197) (Alcaligenes eutrophus) 

     235        458  Enterococcus faecalis (strain ATCC 700802 / V583)

     236        457  Nicotiana tabacum (Common tobacco)

     237        455  Staphylococcus aureus (strain JH1)

     238        454  Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath)

     239        454  Ovis aries (Sheep)

     240        454  Xanthomonas oryzae pv. oryzae (strain MAFF 311018)

     241        453  Pseudomonas putida (strain W619)

     242        453  Rickettsia felis (strain ATCC VR-1525 / URRWXCal2) (Rickettsia azadi)

     243        452  Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)

     244        452  Shewanella baltica (strain OS185)

     245        451  Campylobacter jejuni subsp. jejuni serotype O:2 (strain NCTC 11168)

     246        451  Aeromonas salmonicida (strain A449)

     247        449  Thermoanaerobacter tengcongensis  

     248        449  Staphylococcus aureus (strain JH9)

     249        449  Hahella chejuensis (strain KCTC 2396)

     250        449  Mycobacterium paratuberculosis (strain ATCC BAA-968 / K-10)





   

   2.3  Taxonomic distribution of the sequences



   



   Kingdom        sequences (% of the database)

    Archaea           19038 (  4%)

    Bacteria         329029 ( 61%)

    Eukaryota        176544 ( 33%)

    Viruses           16347 (  3%)





   Within Eukaryota:



   



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

     Human                  20272 ( 11%)           (  4%)

     Other Mammalia         45925 ( 26%)           (  8%)

     Other Vertebrata       17511 ( 10%)           (  3%)

     Viridiplantae          34227 ( 19%)           (  6%)

     Fungi                  30879 ( 17%)           (  6%)

     Insecta                 8694 (  5%)           (  2%)

     Nematoda                4315 (  2%)           (  1%)

     Other                  14721 (  8%)           (  3%)







3.  SEQUENCE SIZE



   Repartition of the sequences by size (excluding fragments)



               From   To  Number             From   To   Number

                  1-  50    9067             1001-1100     3753

                 51- 100   41435             1101-1200     2601

                101- 150   57721             1201-1300     2028

                151- 200   57798             1301-1400     1885

                201- 250   56538             1401-1500     1514

                251- 300   50038             1501-1600      737

                301- 350   50226             1601-1700      569

                351- 400   43462             1701-1800      470

                401- 450   35560             1801-1900      432

                451- 500   28621             1901-2000      353

                501- 550   20375             2001-2100      215

                551- 600   14634             2101-2200      292

                601- 650   12286             2201-2300      297

                651- 700    8857             2301-2400      181

                701- 750    7305             2401-2500      138

                751- 800    5191             >2500         1093

                801- 850    4542

                851- 900    5034

                901- 950    3879

                951-1000    2762



   





   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: 2339





   4.1 Table of the frequency of journal citations



        Journals cited 1x:  755

                       2x:  311

                       3x:  157

                       4x:  111

                       5x:   92

                       6x:   77

                       7x:   59

                       8x:   42

                       9x:   36

                      10x:   36

                  11- 20x:  183

                  21- 50x:  187

                  51-100x:  104

                    >100x:  189





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



   Nb    Citations   Journal name

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

    1        21359   Journal of Biological Chemistry

    2         9649   Proceedings of the National Academy of Sciences of the U.S.A.

    3         5762   Journal of Bacteriology

    4         5070   Biochemical and Biophysical Research Communications

    5         4616   Gene

    6         4588   Nucleic Acids Research

    7         4507   Biochemistry

    8         4398   FEBS Letters

    9         4254   The EMBO Journal

   10         3947   Molecular and Cellular Biology

   11         3761   Nature

   12         3611   Journal of Molecular Biology

   13         3250   European Journal of Biochemistry

   14         3244   Biochimica et Biophysica Acta

   15         3070   Cell

   16         2616   Journal of Virology

   17         2530   Biochemical Journal

   18         2511   Genomics

   19         2494   Science

   20         2082   Molecular Microbiology

   21         1900   Plant Physiology

   22         1897   Journal of Cell Biology

   23         1660   Plant Molecular Biology

   24         1640   The American Journal of Human Genetics

   25         1616   Genes and Development

   26         1545   Virology

   27         1525   Nature Genetics

   28         1470   Human Molecular Genetics

   29         1449   Oncogene

   30         1365   Development

   31         1350   Molecular Biology of the Cell

   32         1349   Molecular and General Genetics

   33         1333   The Plant Cell

   34         1322   Human Mutation

   35         1243   Journal of Biochemistry

   36         1218   The Plant Journal

   37         1194   Journal of Immunology

   38         1185   Molecular Cell

   39         1114   Genetics

   40         1097   Structure

   41         1036   Journal of General Virology

   42          988   Blood

   43          965   Journal of Cell Science

   44          959   Infection and Immunity

   45          937   Archives of Biochemistry and Biophysics

   46          873   Microbiology

   47          846   Developmental Biology

   48          814   Cancer Research

   49          810   Current Biology

   50          789   Yeast

   51          738   FEMS Microbiology Letters

   52          694   Acta Crystallographica, Section D

   53          667   Protein Science

   54          656   Journal of Neuroscience

   55          655   Toxicon

   56          649   Applied and Environmental Microbiology

   57          649   PLoS ONE

   58          629   Human Genetics

   59          627   Nature Structural Biology

   60          626   Mechanisms of Development

   61          595   Neuron

   62          581   Journal of Clinical Investigation

   63          560   American Journal of Physiology

   64          541   Current Genetics

   65          538   The Journal of Experimental Medicine

   66          508   Proteins

   67          492   Molecular Endocrinology

   68          491   Plant and Cell Physiology

   69          479   Mammalian Genome

   70          470   Journal of Neurochemistry

   71          459   Immunogenetics

   72          454   Nature Cell Biology

   73          451   Bioscience, Biotechnology, and Biochemistry

   74          446   The Journal of Clinical Endocrinology and Metabolism

   75          441   Endocrinology

   76          436   Journal of Medical Genetics

   77          435   Molecular and Biochemical Parasitology

   78          400   Journal of Molecular Evolution

   79          381   Experimental Cell Research

   80          380   Molecular Biology and Evolution

   81          377   DNA and Cell Biology

   82          366   DNA Sequence

   83          355   Peptides

   84          349   Nature Structural and Molecular Biology

   85          336   RNA

   86          330   Developmental Cell

   87          329   The FEBS Journal

   88          329   Brain Research. Molecular Brain Research

   89          325   Tissue Antigens

   90          320   Antimicrobial Agents and Chemotherapy

   91          320   Comparative Biochemistry and Physiology

   92          312   Journal of Investigative Dermatology

   93          307   Molecular Pharmacology

   94          307   Planta

   95          294   Biological Chemistry Hoppe-Seyler

   96          290   Biology of Reproduction

   97          285   Neurology

   98          279   Cytogenetics and Cell Genetics

   99          275   Eukaryotic Cell

  100          273   Developmental Dynamics

  101          269   Virus Research

  102          267   Genome Research

  103          263   EMBO Reports

  104          263   Immunity

  105          259   Biochimie

  106          257   Journal of General Microbiology

  107          255   Genes to Cells

  108          246   The FASEB Journal

  109          245   Molecular Plant-Microbe Interactions

  110          240   The New England Journal of Medicine

  111          234   European Journal of Immunology

  112          231   Annals of Neurology

  113          225   European Journal of Human Genetics

  114          223   Journal of the American Chemical Society

  115          218   Hoppe-Seyler's Zeitschrift fur Physiologische Chemie

  116          215   DNA Research

  117          212   Journal of Human Genetics

  118          209   Acta Crystallographica, Section F

  119          207   Investigative Ophthalmology and Visual Science

  120          203   Archives of Microbiology

  121          201   Nature Immunology

  122          197   Journal of Experimental Botany

  123          197   Journal of Cellular Biochemistry

  124          195   BMC Genomics

  125          192   American Journal of Medical Genetics. Part A

  126          191   Archives of Virology

  127          189   Molecular and Cellular Endocrinology

  128          185   Journal of Medicinal Chemistry

  129          185   Molecular Immunology

  130          183   Clinical Genetics

  131          182   Glycobiology

  132          182   PLoS Genetics

  133          175   Diabetes

  134          173   Insect Biochemistry and Molecular Biology

  135          171   Circulation Research

  136          168   American Journal of Medical Genetics

  137          168   Molecular Phylogenetics and Evolution

  138          166   International Journal of Cancer

  139          165   Traffic

  140          164   Phytochemistry

  141          161   Molecular Genetics and Metabolism

  142          159   Molecular Reproduction and Development

  143          159   DNA

  144          158   Protein Expression and Purification

  145          156   Cell Cycle

  146          156   Molecular Genetics and Genomics

  147          155   Hemoglobin

  148          155   Biological Chemistry

  149          154   Bioorganicheskaia Khimiia

  150          154   Molecular and Cellular Neuroscience





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)                      1051625                 1.94                                         

   Journal                            845725     419462      1.56       1                                 

   Submitted to EMBL/GenBank/DDBJ     196788     176051      0.36       2                                 

   Submitted to other databases         6881       6402      0.01       3                                 

   Book citation                         724        710     <0.01       4                                 

   Plant Gene Register                   589        577     <0.01       5                                 

   Thesis                                417        414     <0.01       6                                 

   Unpublished observations              304        300     <0.01       7                                 

   Patent                                191        188     <0.01       8                                 

   Worm Breeder's Gazette                  6          6     <0.01       9                                 



Total number of distinct authors cited in UniProtKB/Swiss-Prot: 340156



                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Comments (CC)                        2442160                 4.51                                         

   ALLERGEN                              530        530     <0.01      27                                 

   ALTERNATIVE PRODUCTS                22378      22378      0.04      13                                 

   BIOPHYSICOCHEMICAL PROPERTIES        5111       5111      0.01      23                                 

   BIOTECHNOLOGY                         358        356     <0.01      28                                 

   CATALYTIC ACTIVITY                 245084     221768      0.45       5                                 

   CAUTION                              9419       9244      0.02      19                                 

   COFACTOR                           108867      99340      0.20       7                                 

   DEVELOPMENTAL STAGE                  9994       9994      0.02      17                                 

   DISEASE                              5357       3606      0.01      22                                 

   DISRUPTION PHENOTYPE                 6025       6025      0.01      20                                 

   DOMAIN                              40017      35158      0.07      10                                 

   ENZYME REGULATION                   11273      11273      0.02      15                                 

   FUNCTION                           424497     406980      0.78       2                                 

   INDUCTION                           15469      15469      0.03      14                                 

   INTERACTION                         10310      10310      0.02      16                                 

   MASS SPECTROMETRY                    5607       4274      0.01      21                                 

   MISCELLANEOUS                       32886      30384      0.06      12                                 

   PATHWAY                            131976     120094      0.24       6                                 

   PHARMACEUTICAL                         93         93     <0.01      29                                 

   POLYMORPHISM                          904        850     <0.01      24                                 

   PTM                                 44904      35006      0.08       8                                 

   RNA EDITING                           627        627     <0.01      25                                 

   SEQUENCE CAUTION                    41304      41304      0.08       9                                 

   SIMILARITY                         643411     516362      1.19       1                                 

   SUBCELLULAR LOCATION               328526     322450      0.61       3                                 

   SUBUNIT                            248076     248076      0.46       4                                 

   TISSUE SPECIFICITY                  39129      39129      0.07      11                                 

   TOXIC DOSE                            553        516     <0.01      26                                 

   WEB RESOURCE                         9475       7539      0.02      18                                 



Total number of comment topics: 29





                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Features (FT)                        3750461                 6.93                                         

   ACT_SITE                           143754      88065      0.27       9                                 

   BINDING                            297794      79602      0.55       4                                 

   CA_BIND                              3926       1644      0.01      35                                 

   CARBOHYD                           107701      27583      0.20      15                                 

   CHAIN                              547924     534717      1.01       1                                 

   COILED                              20368      13990      0.04      26                                 

   COMPBIAS                            54652      29040      0.10      18                                 

   CONFLICT                           128498      45001      0.24      12                                 

   CROSSLNK                             6871       3958      0.01      34                                 

   DISULFID                           110029      30252      0.20      14                                 

   DNA_BIND                            10414       9489      0.02      31                                 

   DOMAIN                             162264      96647      0.30       8                                 

   HELIX                              184551      17940      0.34       6                                 

   INIT_MET                            15668      15668      0.03      27                                 

   INTRAMEM                             2179        941     <0.01      37                                 

   LIPID                               11961       7595      0.02      30                                 

   METAL                              320666      78845      0.59       3                                 

   MOD_RES                            162562      60426      0.30       7                                 

   MOTIF                               36092      23403      0.07      24                                 

   MUTAGEN                             44720      10386      0.08      22                                 

   NON_CONS                             2043        751     <0.01      38                                 

   NON_STD                               354        279     <0.01      39                                 

   NON_TER                             12214       9334      0.02      29                                 

   NP_BIND                            122006      74065      0.23      13                                 

   PEPTIDE                             10343       7054      0.02      32                                 

   PROPEP                              12675      10901      0.02      28                                 

   REGION                             137769      69620      0.25      10                                 

   REPEAT                              95993      14198      0.18      16                                 

   SIGNAL                              38440      38430      0.07      23                                 

   SITE                                46990      26023      0.09      19                                 

   STRAND                             192868      16940      0.36       5                                 

   TOPO_DOM                           130823      27108      0.24      11                                 

   TRANSIT                              8435       8330      0.02      33                                 

   TRANSMEM                           356718      73648      0.66       2                                 

   TURN                                44884      14535      0.08      21                                 

   UNSURE                               3355        718      0.01      36                                 

   VAR_SEQ                             46384      19471      0.09      20                                 

   VARIANT                             86141      16805      0.16      17                                 

   ZN_FING                             29432      12946      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)               16000171                29.58                                                           

   Allergome                            1506        947     <0.01     100      Protein family/group databases               

   ArachnoServer                         763        755     <0.01     111      Organism-specific databases                  

   ArrayExpress                        33204      33204      0.06      48      Gene expression databases                    

   Bgee                                38788      38788      0.07      44      Gene expression databases                    

   BindingDB                            5033       5033      0.01      85      Other                                        

   BioCyc                             311819     301132      0.58      20      Enzyme and pathway databases                 

   BRENDA                               4329       4318      0.01      91      Enzyme and pathway databases                 

   CAZy                                 7636       6876      0.01      74      Protein family/group databases               

   CGD                                   719        697     <0.01     112      Organism-specific databases                  

   ChEMBL                               5636       5636      0.01      79      Other                                        

   ChiTaRS                             12538      12533      0.02      68      Other                                        

   CleanEx                             30084      29443      0.06      50      Gene expression databases                    

   COMPLUYEAST-2DPAGE                     99         98     <0.01     124      2D gel databases                             

   ConoServer                            926        844     <0.01     105      Organism-specific databases                  

   CTD                                 70336      69652      0.13      39      Organism-specific databases                  

   CYGD                                 5596       5593      0.01      80      Organism-specific databases                  

   dictyBase                            4203       4087      0.01      93      Organism-specific databases                  

   DIP                                 14382      14295      0.03      66      Protein-protein interaction databases        

   DisProt                               605        602     <0.01     116      3D structure databases                       

   DMDM                                16758      16755      0.03      63      Polymorphism databases                       

   DNASU                               18719      18648      0.03      58      Protocols and materials databases            

   DOSAC-COBS-2DPAGE                     149        147     <0.01     123      2D gel databases                             

   DrugBank                             5319       1628      0.01      83      Other                                        

   EchoBASE                             4161       4161      0.01      94      Organism-specific databases                  

   EcoGene                              4292       4290      0.01      92      Organism-specific databases                  

   eggNOG                             431041     431041      0.80      10      Phylogenomic databases                       

   EMBL                               942618     529686      1.74       3      Sequence databases                           

   Ensembl                             84831      48744      0.16      35      Genome annotation databases                  

   EnsemblBacteria                    342910     324736      0.63      18      Genome annotation databases                  

   EnsemblFungi                        18639      18335      0.03      59      Genome annotation databases                  

   EnsemblMetazoa                      12414       9307      0.02      69      Genome annotation databases                  

   EnsemblPlants                       16787      14804      0.03      62      Genome annotation databases                  

   EnsemblProtists                      4510       4383      0.01      90      Genome annotation databases                  

   euHCVdb                                55         44     <0.01     125      Organism-specific databases                  

   EuPathDB                              772        772     <0.01     109      Organism-specific databases                  

   EvolutionaryTrace                   16615      16615      0.03      64      Other                                        

   FlyBase                              5902       5528      0.01      78      Organism-specific databases                  

   Gene3D                             359288     274469      0.66      16      Family and domain databases                  

   GeneCards                           20056      19784      0.04      55      Organism-specific databases                  

   GeneFarm                             3216       3205      0.01      95      Organism-specific databases                  

   GeneID                             502144     471107      0.93       6      Genome annotation databases                  

   GeneTree                            38292      38273      0.07      45      Phylogenomic databases                       

   Genevestigator                      67577      67577      0.12      41      Gene expression databases                    

   GeneWiki                            10374      10286      0.02      72      Other                                        

   GenoList                             7072       7060      0.01      75      Organism-specific databases                  

   GenomeRNAi                          21308      21308      0.04      53      Other                                        

   GO                                2444384     511239      4.52       1      Ontologies                                   

   Gramene                              6036       6036      0.01      77      Organism-specific databases                  

   H-InvDB                              5593       4772      0.01      81      Organism-specific databases                  

   HAMAP                              316341     315927      0.58      19      Family and domain databases                  

   HGNC                                19868      19700      0.04      56      Organism-specific databases                  

   HOGENOM                            385744     385744      0.71      13      Phylogenomic databases                       

   HOVERGEN                            75583      75583      0.14      37      Phylogenomic databases                       

   HPA                                 19102      14750      0.04      57      Organism-specific databases                  

   InParanoid                          70223      70223      0.13      40      Phylogenomic databases                       

   IntAct                              35319      35319      0.07      46      Protein-protein interaction databases        

   InterPro                          1822850     517872      3.37       2      Family and domain databases                  

   IPI                                 98254      68100      0.18      32      Sequence databases                           

   KEGG                               480087     449952      0.89       8      Genome annotation databases                  

   KO                                 375001     374574      0.69      14      Phylogenomic databases                       

   LegioList                             765        763     <0.01     110      Organism-specific databases                  

   Leproma                               671        668     <0.01     113      Organism-specific databases                  

   MaizeGDB                              501        496     <0.01     118      Organism-specific databases                  

   MEROPS                              11897      11897      0.02      71      Protein family/group databases               

   MGI                                 16538      16493      0.03      65      Organism-specific databases                  

   MIM                                 18228      13756      0.03      61      Organism-specific databases                  

   MINT                                31532      31532      0.06      49      Protein-protein interaction databases        

   mycoCLAP                              282        277     <0.01     121      Protein family/group databases               

   NextBio                             70916      70916      0.13      38      Other                                        

   neXtProt                            20118      20118      0.04      54      Organism-specific databases                  

   OGP                                   377        377     <0.01     120      2D gel databases                             

   OMA                                395092     395092      0.73      12      Phylogenomic databases                       

   Orphanet                             5465       2931      0.01      82      Organism-specific databases                  

   OrthoDB                             78253      78253      0.14      36      Phylogenomic databases                       

   PANTHER                            205791     190989      0.38      24      Family and domain databases                  

   PATRIC                             309006     308975      0.57      21      Genome annotation databases                  

   PaxDb                               66701      66701      0.12      42      Proteomic databases                          

   PDB                                 96860      19829      0.18      34      3D structure databases                       

   PDBsum                              96860      19829      0.18      33      3D structure databases                       

   PeptideAtlas                         5162       5162      0.01      84      Proteomic databases                          

   PeroxiBase                            772        756     <0.01     108      Protein family/group databases               

   Pfam                               724013     499019      1.34       4      Family and domain databases                  

   PharmGKB                            18388      18360      0.03      60      Organism-specific databases                  

   PhosphoSite                         33569      33569      0.06      47      PTM databases                                

   PhosSite                              660        648     <0.01     114      PTM databases                                

   PhylomeDB                           27766      27766      0.05      52      Phylogenomic databases                       

   PIR                                118935     108766      0.22      29      Sequence databases                           

   PIRSF                               99548      99354      0.18      30      Family and domain databases                  

   PMAP-CutDB                           1457       1457     <0.01     101      Other                                        

   PomBase                              5011       4960      0.01      87      Organism-specific databases                  

   PptaseDB                               40         40     <0.01     126      Protein family/group databases               

   PRIDE                              122304     122304      0.23      28      Proteomic databases                          

   PRINTS                             137349     120427      0.25      26      Family and domain databases                  

   ProDom                              29261      29082      0.05      51      Family and domain databases                  

   ProMEX                                848        848     <0.01     107      Proteomic databases                          

   PROSITE                            485976     306167      0.90       7      Family and domain databases                  

   ProtClustDB                        344279     344279      0.64      17      Phylogenomic databases                       

   ProteinModelPortal                 434634     434634      0.80       9      3D structure databases                       

   PseudoCAP                            1255       1246     <0.01     103      Organism-specific databases                  

   Reactome                            14060       8182      0.03      67      Enzyme and pathway databases                 

   REBASE                                403        403     <0.01     119      Protein family/group databases               

   RefSeq                             528194     471452      0.98       5      Sequence databases                           

   REPRODUCTION-2DPAGE                  1257       1036     <0.01     102      2D gel databases                             

   RGD                                  7780       7776      0.01      73      Organism-specific databases                  

   SABIO-RK                             2544       2544     <0.01      98      Enzyme and pathway databases                 

   SGD                                  6640       6635      0.01      76      Organism-specific databases                  

   SignaLink                            2959       2959      0.01      96      Enzyme and pathway databases                 

   SMART                              168064     125810      0.31      25      Family and domain databases                  

   SMR                                220848     220848      0.41      23      3D structure databases                       

   STRING                             396795     396794      0.73      11      Protein-protein interaction databases        

   SUPFAM                             374202     289192      0.69      15      Family and domain databases                  

   SWISS-2DPAGE                         1182       1181     <0.01     104      2D gel databases                             

   TAIR                                12308      12252      0.02      70      Organism-specific databases                  

   TCDB                                 5026       5005      0.01      86      Protein family/group databases               

   TIGRFAMs                           289741     269460      0.54      22      Family and domain databases                  

   TubercuList                          2046       2010     <0.01      99      Organism-specific databases                  

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

   UCSC                                44725      44725      0.08      43      Genome annotation databases                  

   UniCarbKB                             272        272     <0.01     122      PTM databases                                

   UniGene                             99258      90159      0.18      31      Sequence databases                           

   UniPathway                         131852     119975      0.24      27      Enzyme and pathway databases                 

   VectorBase                            606        588     <0.01     115      Genome annotation databases                  

   World-2DPAGE                          920        909     <0.01     106      2D gel databases                             

   WormBase                             4939       3968      0.01      88      Organism-specific databases                  

   Xenbase                              4743       4737      0.01      89      Organism-specific databases                  

   ZFIN                                 2812       2812      0.01      97      Organism-specific databases                  



Total number of cross-referenced databases: 126



6.  AMINO ACID COMPOSITION



   6.1  Composition in percent for the complete database



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

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

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

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

   Cys (C) 1.37   Ile (I) 5.96   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 3724 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: 75032