UniProtKB/Swiss-Prot protein knowledgebase release 2015_05 statistics





1.  INTRODUCTION



Release 2015_05 of 29-Apr-15 of UniProtKB/Swiss-Prot contains 548454 sequence entries,

comprising 195409447 amino acids abstracted from 236665 references. 



255 sequences have been added since release 2015_04, the sequence data of

17 existing entries has been updated and the annotations of

192227 entries have been revised.



Number of fragments: 9122

Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 38725





Protein existence (PE):           entries     %



1: Evidence at protein level        85419   15.6%

2: Evidence at transcript level     61814   11.3%

3: Inferred from homology          387733   70.7%

4: Predicted                        11526    2.1%

5: Uncertain                         1962    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: 13209



   The first twenty species represent 116206 sequences:  21.2 % of the total

   number of entries.





   2.1 Table of the frequency of occurrence of species



        Species represented 1x: 5495

                            2x: 1899

                            3x: 1023

                            4x:  657

                            5x:  487

                            6x:  399

                            7x:  289

                            8x:  228

                            9x:  214

                           10x:  122

                       11- 20x:  711

                       21- 50x:  426

                       51-100x:  213

                         >100x: 1046





   2.2  Table of the most represented species



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

  Number  Frequency  Species

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

       1      20198  Homo sapiens (Human)

       2      16711  Mus musculus (Mouse)

       3      13888  Arabidopsis thaliana (Mouse-ear cress)

       4       7921  Rattus norvegicus (Rat)

       5       6718  Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

       6       5993  Bos taurus (Bovine)

       7       5103  Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)

       8       4433  Escherichia coli (strain K12)

       9       4185  Bacillus subtilis (strain 168)

      10       4131  Dictyostelium discoideum (Slime mold)

      11       3535  Caenorhabditis elegans

      12       3392  Xenopus laevis (African clawed frog)

      13       3339  Oryza sativa subsp. japonica (Rice)

      14       3246  Drosophila melanogaster (Fruit fly)

      15       2944  Danio rerio (Zebrafish) (Brachydanio rerio)

      16       2262  Gallus gallus (Chicken)

      17       2219  Pongo abelii (Sumatran orangutan) (Pongo pygmaeus abelii)

      18       2072  Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)

      19       2027  Escherichia coli O157:H7

      20       1889  Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)

      21       1787  Methanocaldococcus jannaschii  

      22       1783  Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

      23       1707  Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)

      24       1701  Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)

      25       1688  Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

      26       1680  Shigella flexneri

      27       1415  Sus scrofa (Pig)

      28       1346  Salmonella typhi

      29       1283  Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228)

      30       1243  Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97)

      31       1170  Macaca fascicularis (Crab-eating macaque) (Cynomolgus monkey)

      32       1054  Synechocystis sp. (strain PCC 6803 / Kazusa)

      33       1026  Archaeoglobus fulgidus 

      34       1022  Yersinia pestis

      35        980  Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)

      36        956  Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)

      37        930  Salmonella paratyphi A (strain ATCC 9150 / SARB42)

      38        927  Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056)  

      39        926  Staphylococcus aureus (strain N315)

      40        925  Staphylococcus aureus (strain Mu50 / ATCC 700699)

      41        910  Kluyveromyces lactis   

      42        909  Acanthamoeba polyphaga mimivirus (APMV)

      43        899  Staphylococcus aureus (strain COL)

      44        895  Staphylococcus aureus (strain MW2)

      45        892  Escherichia coli O6:K15:H31 (strain 536 / UPEC)

      46        889  Staphylococcus aureus (strain MSSA476)

      47        889  Oryctolagus cuniculus (Rabbit)

      48        888  Staphylococcus aureus (strain MRSA252)

      49        882  Salmonella choleraesuis (strain SC-B67)

      50        878  Shigella sonnei (strain Ss046)

      51        878  Rhizobium meliloti (strain 1021) (Ensifer meliloti) (Sinorhizobium meliloti)

      52        863  Yersinia pseudotuberculosis serotype I (strain IP32953)

      53        862  Candida glabrata   

      54        843  Neurospora crassa 

      55        841  Escherichia coli O9:H4 (strain HS)

      56        834  Escherichia coli O139:H28 (strain E24377A / ETEC)

      57        829  Shigella boydii serotype 4 (strain Sb227)

      58        825  Escherichia coli (strain UTI89 / UPEC)

      59        822  Shigella dysenteriae serotype 1 (strain Sd197)

      60        819  Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks)

      61        811  Canis familiaris (Dog) (Canis lupus familiaris)

      62        791  Escherichia coli (strain SMS-3-5 / SECEC)

      63        790  Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672) 

      64        790  Emericella nidulans  

      65        788  Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)

      66        784  Aquifex aeolicus (strain VF5)

      67        776  Pasteurella multocida (strain Pm70)

      68        772  Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)

      69        771  Escherichia coli (strain K12 / DH10B)

      70        771  Escherichia coli O127:H6 (strain E2348/69 / EPEC)

      71        765  Escherichia coli (strain K12 / MC4100 / BW2952)

      72        764  Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC)

      73        762  Escherichia coli (strain 55989 / EAEC)

      74        761  Escherichia coli O8 (strain IAI1)

      75        760  Shigella flexneri serotype 5b (strain 8401)

      76        759  Staphylococcus epidermidis (strain ATCC 35984 / RP62A)

      77        758  Staphylococcus epidermidis (strain ATCC 12228)

      78        756  Escherichia coli (strain SE11)

      79        756  Escherichia coli O45:K1 (strain S88 / ExPEC)

      80        753  Escherichia coli O7:K1 (strain IAI39 / ExPEC)

      81        752  Zea mays (Maize)

      82        748  Escherichia coli O157:H7 (strain EC4115 / EHEC)

      83        745  Photorhabdus luminescens subsp. laumondii (strain TT01)

      84        742  Staphylococcus aureus (strain NCTC 8325)

      85        741  Bacillus halodurans 

      86        736  Bacillus anthracis

      87        736  Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 8081)

      88        733  Vibrio vulnificus (strain CMCP6)

      89        731  Escherichia coli O81 (strain ED1a)

      90        722  Salmonella enteritidis PT4 (strain P125109)

      91        717  Vibrio vulnificus (strain YJ016)

      92        716  Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7)

      93        715  Yersinia pestis bv. Antiqua (strain Nepal516)

      94        715  Enterobacter sp. (strain 638)

      95        714  Escherichia coli O1:K1 / APEC

      96        714  Salmonella paratyphi A (strain AKU_12601)

      97        713  Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)

      98        713  Salmonella agona (strain SL483)

      99        713  Salmonella newport (strain SL254)

     100        713  Yersinia pseudotuberculosis serotype O:1b (strain IP 31758)

     101        712  Salmonella schwarzengrund (strain CVM19633)

     102        711  Yersinia pestis bv. Antiqua (strain Antiqua)

     103        710  Salmonella heidelberg (strain SL476)

     104        709  Oryza sativa subsp. indica (Rice)

     105        704  Pseudomonas putida (strain KT2440)

     106        702  Salmonella dublin (strain CT_02021853)

     107        698  Klebsiella pneumoniae (strain 342)

     108        698  Shigella boydii serotype 18 (strain CDC 3083-94 / BS512)

     109        695  Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73)

     110        692  Pan troglodytes (Chimpanzee)

     111        691  Nostoc sp. (strain PCC 7120 / UTEX 2576)

     112        687  Mycoplasma pneumoniae (strain ATCC 29342 / M129)

     113        684  Salmonella gallinarum (strain 287/91 / NCTC 13346)

     114        678  Citrobacter koseri (strain ATCC BAA-895 / CDC 4225-83 / SGSC4696)

     115        677  Pseudomonas syringae pv. tomato (strain DC3000)

     116        675  Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) 

     117        670  Serratia proteamaculans (strain 568)

     118        668  Escherichia coli

     119        668  Mycobacterium leprae (strain TN)

     120        667  Yersinia pestis (strain Pestoides F)

     121        666  Staphylococcus aureus (strain USA300)

     122        662  Bacillus cereus 

     123        661  Bradyrhizobium diazoefficiens 

     124        658  Rhizobium sp. (strain NGR234)

     125        653  Debaryomyces hansenii   

     126        644  Yarrowia lipolytica (strain CLIB 122 / E 150) (Yeast) (Candida lipolytica)

     127        643  Shewanella oneidensis (strain MR-1)

     128        643  Staphylococcus aureus (strain bovine RF122 / ET3-1)

     129        643  Agrobacterium tumefaciens (strain C58 / ATCC 33970)

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

     131        638  Yersinia pseudotuberculosis serotype O:3 (strain YPIII)

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

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

     134        620  Methanothermobacter thermautotrophicus  

     135        618  Treponema pallidum (strain Nichols)

     136        613  Staphylococcus haemolyticus (strain JCSC1435)

     137        609  Rhizobium loti (strain MAFF303099) (Mesorhizobium loti)

     138        607  Xanthomonas campestris pv. campestris (strain ATCC 33913 / NCPPB 528 / LMG 568)

     139        607  Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)

     140        603  Ralstonia solanacearum (strain GMI1000) (Pseudomonas solanacearum)

     141        602  Photobacterium profundum (Photobacterium sp. (strain SS9))

     142        602  Staphylococcus saprophyticus subsp. saprophyticus 

     143        601  Salmonella paratyphi C (strain RKS4594)

     144        600  Yersinia pestis bv. Antiqua (strain Angola)

     145        593  Bacillus cereus (strain ATCC 10987)

     146        592  Listeria innocua serovar 6a (strain CLIP 11262)

     147        591  Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)

     148        591  Pectobacterium carotovorum subsp. carotovorum (strain PC1)

     149        589  Pseudomonas aeruginosa (strain UCBPP-PA14)

     150        586  Rickettsia prowazekii (strain Madrid E)

     151        579  Neisseria meningitidis serogroup B (strain MC58)

     152        576  Brucella suis biovar 1 (strain 1330)

     153        573  Brucella melitensis biotype 1 (strain 16M / ATCC 23456 / NCTC 10094)

     154        572  Caenorhabditis briggsae

     155        572  Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) 

     156        569  Bacillus thuringiensis subsp. konkukian (strain 97-27)

     157        568  Caulobacter crescentus (strain ATCC 19089 / CB15)

     158        568  Helicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99)

     159        567  Pseudomonas syringae pv. syringae (strain B728a)

     160        566  Vibrio fischeri (strain ATCC 700601 / ES114)

     161        564  Bacillus licheniformis (strain DSM 13 / ATCC 14580)

     162        562  Bacillus cereus (strain ZK / E33L)

     163        562  Buchnera aphidicola subsp. Schizaphis graminum (strain Sg)

     164        558  Clostridium acetobutylicum 

     165        556  Xanthomonas axonopodis pv. citri (strain 306)

     166        553  Oceanobacillus iheyensis (strain DSM 14371 / JCM 11309 / KCTC 3954 / HTE831)

     167        553  Neisseria meningitidis serogroup A / serotype 4A (strain Z2491)

     168        552  Pseudomonas fluorescens (strain Pf0-1)

     169        548  Pseudomonas fluorescens (strain Pf-5 / ATCC BAA-477)

     170        545  Pseudomonas syringae pv. phaseolicola (strain 1448A / Race 6)

     171        540  Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)

     172        535  Lactococcus lactis subsp. lactis (strain IL1403) (Streptococcus lactis)

     173        531  Erwinia tasmaniensis (strain DSM 17950 / Et1/99)

     174        529  Sodalis glossinidius (strain morsitans)

     175        529  Listeria monocytogenes serotype 4b (strain F2365)

     176        525  Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50) 

     177        522  Xylella fastidiosa (strain 9a5c)

     178        516  Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)

     179        516  Chromobacterium violaceum 

     180        515  Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251)

     181        515  Corynebacterium glutamicum 

     182        515  Xylella fastidiosa (strain Temecula1 / ATCC 700964)

     183        511  Pseudomonas aeruginosa (strain PA7)

     184        510  Haemophilus ducreyi (strain 35000HP / ATCC 700724)

     185        509  Deinococcus radiodurans 

     186        508  Staphylococcus aureus (strain Newman)

     187        508  Geobacillus kaustophilus (strain HTA426)

     188        508  Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253)

     189        507  Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp)

     190        506  Streptomyces avermitilis 

     191        502  Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)

     192        500  Pseudomonas entomophila (strain L48)

     193        499  Brucella abortus biovar 1 (strain 9-941)

     194        497  Rickettsia conorii (strain ATCC VR-613 / Malish 7)

     195        496  Bacillus clausii (strain KSM-K16)

     196        495  Burkholderia pseudomallei (strain K96243)

     197        495  Haemophilus influenzae (strain 86-028NP)

     198        494  Proteus mirabilis (strain HI4320)

     199        494  Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 / JCM 12185 / C2A)

     200        494  Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)

     201        493  Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)

     202        492  Bacillus amyloliquefaciens subsp. plantarum 

     203        491  Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1) 

     204        491  Xanthomonas campestris pv. campestris (strain 8004)

     205        490  Vibrio campbellii (strain ATCC BAA-1116 / BB120)

     206        487  Methanosarcina mazei  

     207        487  Shewanella sp. (strain MR-7)

     208        486  Mannheimia succiniciproducens (strain MBEL55E)

     209        484  Pseudomonas aeruginosa (strain LESB58)

     210        484  Staphylococcus aureus (strain Mu3 / ATCC 700698)

     211        484  Thermosynechococcus elongatus (strain BP-1)

     212        484  Shewanella sp. (strain MR-4)

     213        483  Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1)

     214        483  Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195)

     215        481  Pyrococcus horikoshii 

     216        479  Aspergillus oryzae (strain ATCC 42149 / RIB 40) (Yellow koji mold)

     217        479  Synechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)

     218        478  Pseudomonas putida (strain F1 / ATCC 700007)

     219        477  Pyrococcus abyssi (strain GE5 / Orsay)

     220        477  Brucella abortus (strain 2308)

     221        476  Streptococcus pneumoniae (strain ATCC BAA-255 / R6)

     222        474  Burkholderia lata (strain ATCC 17760 / LMG 22485 / NCIMB 9086 / R18194 / 383)

     223        468  Clostridium perfringens (strain 13 / Type A)

     224        467  Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337) 

     225        466  Nicotiana tabacum (Common tobacco)

     226        466  Xanthomonas campestris pv. vesicatoria (strain 85-10)

     227        466  Shewanella frigidimarina (strain NCIMB 400)

     228        466  Pseudomonas putida (strain GB-1)

     229        466  Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)

     230        464  Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)

     231        464  Rhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)

     232        464  Aeromonas hydrophila subsp. hydrophila 

     233        464  Anabaena variabilis (strain ATCC 29413 / PCC 7937)

     234        463  Shewanella sp. (strain ANA-3)

     235        462  Burkholderia mallei (strain ATCC 23344)

     236        461  Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)

     237        460  Enterococcus faecalis (strain ATCC 700802 / V583)

     238        459  Cupriavidus pinatubonensis (strain JMP 134 / LMG 1197) (Ralstonia eutropha 

     239        457  Campylobacter jejuni subsp. jejuni serotype O:2 (strain NCTC 11168)

     240        457  Rickettsia felis (strain ATCC VR-1525 / URRWXCal2) (Rickettsia azadi)

     241        456  Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath)

     242        455  Staphylococcus aureus (strain JH1)

     243        455  Ovis aries (Sheep)

     244        454  Xanthomonas oryzae pv. oryzae (strain MAFF 311018)

     245        453  Pseudomonas putida (strain W619)

     246        452  Shewanella baltica (strain OS185)

     247        451  Streptococcus mutans serotype c (strain ATCC 700610 / UA159)

     248        451  Aeromonas salmonicida (strain A449)

     249        450  Mycobacterium paratuberculosis (strain ATCC BAA-968 / K-10)

     250        450  Dechloromonas aromatica (strain RCB)





   

   2.3  Taxonomic distribution of the sequences



   



   Kingdom        sequences (% of the database)

    Archaea           19340 (  4%)

    Bacteria         332110 ( 61%)

    Eukaryota        180411 ( 33%)

    Viruses           16593 (  3%)





   Within Eukaryota:



   



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

     Human                  20199 ( 11%)           (  4%)

     Other Mammalia         46146 ( 26%)           (  8%)

     Other Vertebrata       17823 ( 10%)           (  3%)

     Viridiplantae          36480 ( 20%)           (  7%)

     Fungi                  31527 ( 17%)           (  6%)

     Insecta                 8781 (  5%)           (  2%)

     Nematoda                4417 (  2%)           (  1%)

     Other                  15038 (  8%)           (  3%)







3.  SEQUENCE SIZE



   Repartition of the sequences by size (excluding fragments)



               From   To  Number             From   To   Number

                  1-  50    9115             1001-1100     3819

                 51- 100   41908             1101-1200     2673

                101- 150   58376             1201-1300     2070

                151- 200   58263             1301-1400     1934

                201- 250   57133             1401-1500     1543

                251- 300   50739             1501-1600      758

                301- 350   50987             1601-1700      581

                351- 400   44139             1701-1800      487

                401- 450   36213             1801-1900      442

                451- 500   29083             1901-2000      362

                501- 550   20782             2001-2100      220

                551- 600   14890             2101-2200      299

                601- 650   12464             2201-2300      302

                651- 700    9004             2301-2400      187

                701- 750    7448             2401-2500      142

                751- 800    5335             >2500         1132

                801- 850    4641

                851- 900    5110

                901- 950    3941

                951-1000    2810



   





   The average sequence length in UniProtKB/Swiss-Prot is 356 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: 2502





   4.1 Table of the frequency of journal citations



        Journals cited 1x:  816

                       2x:  325

                       3x:  173

                       4x:  117

                       5x:  101

                       6x:   79

                       7x:   52

                       8x:   49

                       9x:   31

                      10x:   39

                  11- 20x:  205

                  21- 50x:  201

                  51-100x:  113

                    >100x:  201





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



   Nb    Citations   Journal name

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

    1        22603   Journal of Biological Chemistry

    2        10279   Proceedings of the National Academy of Sciences of the U.S.A.

    3         6145   Journal of Bacteriology

    4         5273   Biochemical and Biophysical Research Communications

    5         4847   Biochemistry

    6         4753   Nucleic Acids Research

    7         4705   Gene

    8         4566   FEBS Letters

    9         4428   The EMBO Journal

   10         4103   Molecular and Cellular Biology

   11         4013   Nature

   12         3897   Journal of Molecular Biology

   13         3379   Biochimica et Biophysica Acta

   14         3310   European Journal of Biochemistry

   15         3233   Cell

   16         2787   Journal of Virology

   17         2693   Science

   18         2656   Biochemical Journal

   19         2517   Genomics

   20         2255   Molecular Microbiology

   21         2124   Plant Physiology

   22         2001   Journal of Cell Biology

   23         1813   The American Journal of Human Genetics

   24         1734   Plant Molecular Biology

   25         1708   Genes and Development

   26         1613   Nature Genetics

   27         1600   Human Molecular Genetics

   28         1598   Virology

   29         1587   The Plant Cell

   30         1483   Oncogene

   31         1470   Molecular Biology of the Cell

   32         1457   Development

   33         1444   The Plant Journal

   34         1411   Human Mutation

   35         1368   Molecular and General Genetics

   36         1317   Molecular Cell

   37         1283   Journal of Biochemistry

   38         1237   Journal of Immunology

   39         1185   Structure

   40         1179   Genetics

   41         1059   PLoS ONE

   42         1052   Journal of General Virology

   43         1051   Journal of Cell Science

   44         1048   Blood

   45         1029   Infection and Immunity

   46          975   Archives of Biochemistry and Biophysics

   47          971   Microbiology

   48          892   Developmental Biology

   49          885   Current Biology

   50          834   Cancer Research

   51          823   Yeast

   52          782   FEMS Microbiology Letters

   53          770   Acta Crystallographica, Section D

   54          736   Applied and Environmental Microbiology

   55          736   Journal of Neuroscience

   56          710   Protein Science

   57          710   Toxicon

   58          654   Human Genetics

   59          638   Neuron

   60          635   Nature Structural Biology

   61          631   Journal of Clinical Investigation

   62          629   Mechanisms of Development

   63          604   American Journal of Physiology

   64          560   The Journal of Experimental Medicine

   65          554   Current Genetics

   66          550   Plant and Cell Physiology

   67          547   Proteins

   68          506   Molecular Endocrinology

   69          498   Journal of Medical Genetics

   70          495   Journal of Neurochemistry

   71          486   Bioscience, Biotechnology, and Biochemistry

   72          485   Nature Cell Biology

   73          484   Mammalian Genome

   74          475   The Journal of Clinical Endocrinology and Metabolism

   75          464   Endocrinology

   76          461   Immunogenetics

   77          443   Molecular and Biochemical Parasitology

   78          410   Experimental Cell Research

   79          408   Nature Structural and Molecular Biology

   80          403   Journal of Molecular Evolution

   81          390   The FEBS Journal

   82          389   Antimicrobial Agents and Chemotherapy

   83          385   Molecular Biology and Evolution

   84          381   Peptides

   85          381   Developmental Cell

   86          379   DNA and Cell Biology

   87          374   Eukaryotic Cell

   88          368   DNA Sequence

   89          367   RNA

   90          349   Planta

   91          345   Journal of Investigative Dermatology

   92          333   Brain Research. Molecular Brain Research

   93          331   Molecular Pharmacology

   94          329   Comparative Biochemistry and Physiology

   95          325   Tissue Antigens

   96          313   Neurology

   97          307   PLoS Genetics

   98          300   Biology of Reproduction

   99          294   Biological Chemistry Hoppe-Seyler

  100          294   EMBO Reports

  101          288   The FASEB Journal

  102          286   Developmental Dynamics

  103          283   Biochimie

  104          282   Immunity

  105          282   Genes to Cells

  106          281   The New England Journal of Medicine

  107          281   Cytogenetics and Cell Genetics

  108          280   Journal of the American Chemical Society

  109          276   Genome Research

  110          276   Virus Research

  111          275   Molecular Plant-Microbe Interactions

  112          263   Journal of General Microbiology

  113          262   Acta Crystallographica, Section F

  114          259   European Journal of Human Genetics

  115          246   Annals of Neurology

  116          242   Journal of Experimental Botany

  117          240   European Journal of Immunology

  118          231   Investigative Ophthalmology and Visual Science

  119          225   BMC Genomics

  120          223   Journal of Human Genetics

  121          220   DNA Research

  122          219   Archives of Microbiology

  123          219   Nature Immunology

  124          218   Hoppe-Seyler's Zeitschrift fur Physiologische Chemie

  125          218   American Journal of Medical Genetics. Part A

  126          212   Clinical Genetics

  127          209   Journal of Cellular Biochemistry

  128          205   Glycobiology

  129          204   PLoS Pathogens

  130          203   Journal of Medicinal Chemistry

  131          198   Molecular and Cellular Endocrinology

  132          195   Archives of Virology

  133          194   Circulation Research

  134          194   Traffic

  135          193   Molecular Immunology

  136          190   Diabetes

  137          189   Cell Cycle

  138          188   Applied Microbiology and Biotechnology

  139          185   Molecular Genetics and Metabolism

  140          177   PLoS Biology

  141          177   Protein Expression and Purification

  142          177   Phytochemistry

  143          176   Insect Biochemistry and Molecular Biology

  144          171   International Journal of Cancer

  145          171   Molecular Phylogenetics and Evolution

  146          168   American Journal of Medical Genetics

  147          167   Journal of Lipid Research

  148          165   Proteomics

  149          163   Molecular Genetics and Genomics

  150          163   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)                      1104870                 2.01                                         

   Journal                            910620     436724      1.66       1                                 

   Submitted to EMBL/GenBank/DDBJ     184115     162620      0.34       2                                 

   Submitted to other databases         7087       6573      0.01       3                                 

   Book citation                        1483       1469     <0.01       4                                 

   Plant Gene Register                   598        586     <0.01       5                                 

   Thesis                                426        423     <0.01       6                                 

   Unpublished observations              344        340     <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: 363270



                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Comments (CC)                        2544432                 4.64                                         

   ALLERGEN                              664        664     <0.01      25                                 

   ALTERNATIVE PRODUCTS                24213      24213      0.04      13                                 

   BIOPHYSICOCHEMICAL PROPERTIES        6478       6478      0.01      21                                 

   BIOTECHNOLOGY                         441        439     <0.01      28                                 

   CATALYTIC ACTIVITY                 254065     229005      0.46       5                                 

   CAUTION                             10158       9966      0.02      18                                 

   COFACTOR                           117396     107494      0.21       7                                 

   DEVELOPMENTAL STAGE                 10541      10541      0.02      17                                 

   DISEASE                              5984       4023      0.01      22                                 

   DISRUPTION PHENOTYPE                 8615       8615      0.02      19                                 

   DOMAIN                              42994      37299      0.08       9                                 

   ENZYME REGULATION                   13121      13121      0.02      16                                 

   FUNCTION                           440893     422887      0.80       2                                 

   INDUCTION                           17263      17263      0.03      14                                 

   INTERACTION                         15460      15460      0.03      15                                 

   MASS SPECTROMETRY                    5919       4485      0.01      23                                 

   MISCELLANEOUS                       34505      31712      0.06      12                                 

   PATHWAY                            134747     122129      0.25       6                                 

   PHARMACEUTICAL                         98         98     <0.01      29                                 

   POLYMORPHISM                         1044        988     <0.01      24                                 

   PTM                                 48802      37289      0.09       8                                 

   RNA EDITING                           627        627     <0.01      26                                 

   SEQUENCE CAUTION                    42497      42497      0.08      10                                 

   SIMILARITY                         661548     523550      1.21       1                                 

   SUBCELLULAR LOCATION               336410     329840      0.61       3                                 

   SUBUNIT                            259615     259615      0.47       4                                 

   TISSUE SPECIFICITY                  41436      41436      0.08      11                                 

   TOXIC DOSE                            607        561     <0.01      27                                 

   WEB RESOURCE                         8291       6944      0.02      20                                 



Total number of comment topics: 29





                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Features (FT)                        4022288                 7.33                                         

   ACT_SITE                           152307      93280      0.28      10                                 

   BINDING                            343500      90867      0.63       4                                 

   CA_BIND                              3985       1678      0.01      35                                 

   CARBOHYD                           110390      28291      0.20      15                                 

   CHAIN                              555937     542087      1.01       1                                 

   COILED                              21068      14520      0.04      26                                 

   COMPBIAS                            56714      30281      0.10      18                                 

   CONFLICT                           131110      45893      0.24      13                                 

   CROSSLNK                             7602       4166      0.01      34                                 

   DISULFID                           115884      31623      0.21      14                                 

   DNA_BIND                            10815       9819      0.02      31                                 

   DOMAIN                             175566     106411      0.32       8                                 

   HELIX                              205659      19539      0.37       6                                 

   INIT_MET                            17972      17972      0.03      27                                 

   INTRAMEM                             2340       1021     <0.01      37                                 

   LIPID                               12327       7930      0.02      29                                 

   METAL                              347379      86224      0.63       3                                 

   MOD_RES                            185139      64080      0.34       7                                 

   MOTIF                               38788      25076      0.07      24                                 

   MUTAGEN                             52429      11980      0.10      19                                 

   NON_CONS                             2050        756     <0.01      38                                 

   NON_STD                               358        283     <0.01      39                                 

   NON_TER                             12276       9387      0.02      30                                 

   NP_BIND                            134850      78806      0.25      11                                 

   PEPTIDE                             10574       7209      0.02      32                                 

   PROPEP                              13081      11271      0.02      28                                 

   REGION                             168246      80794      0.31       9                                 

   REPEAT                              99350      14369      0.18      16                                 

   SIGNAL                              39662      39652      0.07      23                                 

   SITE                                50415      28055      0.09      21                                 

   STRAND                             214853      18433      0.39       5                                 

   TOPO_DOM                           134419      27624      0.25      12                                 

   TRANSIT                              8881       8768      0.02      33                                 

   TRANSMEM                           362699      75163      0.66       2                                 

   TURN                                49709      15842      0.09      22                                 

   UNSURE                               3644        735      0.01      36                                 

   VAR_SEQ                             50493      21200      0.09      20                                 

   VARIANT                             89978      16975      0.16      17                                 

   ZN_FING                             29839      13184      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)               17338230                31.61                                                           

   Allergome                            1644       1068     <0.01     107      Protein family/group databases               

   ArachnoServer                        1120       1110     <0.01     113      Organism-specific databases                  

   Bgee                                38841      38841      0.07      51      Gene expression databases                    

   BindingDB                            5473       5473      0.01      91      Chemistry                                    

   BioCyc                             324936     307697      0.59      19      Enzyme and pathway databases                 

   BioGrid                             40858      40482      0.07      50      Protein-protein interaction databases        

   BioMuta                             17258      17258      0.03      68      Polymorphism and mutation databases          

   BRENDA                              12676      11909      0.02      78      Enzyme and pathway databases                 

   CAZy                                 7811       7029      0.01      82      Protein family/group databases               

   CCDS                                45690      33437      0.08      47      Sequence databases                           

   CGD                                   965        935     <0.01     114      Organism-specific databases                  

   ChEMBL                               6159       6159      0.01      86      Chemistry                                    

   ChiTaRS                             16452      16443      0.03      72      Other                                        

   CleanEx                             30059      29420      0.05      56      Gene expression databases                    

   COMPLUYEAST-2DPAGE                     99         98     <0.01     131      2D gel databases                             

   ConoServer                            949        866     <0.01     115      Organism-specific databases                  

   CTD                                 72579      71879      0.13      41      Organism-specific databases                  

   CYGD                                 5596       5593      0.01      89      Organism-specific databases                  

   DEPOD                                 239        239     <0.01     129      PTM databases                                

   dictyBase                            4207       4092      0.01      99      Organism-specific databases                  

   DIP                                 16168      16109      0.03      74      Protein-protein interaction databases        

   DisProt                               605        602     <0.01     121      3D structure databases                       

   DMDM                                16397      16397      0.03      73      Polymorphism and mutation databases          

   DNASU                               18801      18731      0.03      66      Protocols and materials databases            

   DOSAC-COBS-2DPAGE                     149        147     <0.01     130      2D gel databases                             

   DrugBank                            11195       1760      0.02      79      Chemistry                                    

   EchoBASE                             4161       4161      0.01     100      Organism-specific databases                  

   EcoGene                              4294       4292      0.01      98      Organism-specific databases                  

   eggNOG                             431607     431607      0.79      11      Phylogenomic databases                       

   EMBL                               964695     537220      1.76       3      Sequence databases                           

   Ensembl                             82843      48289      0.15      39      Genome annotation databases                  

   EnsemblBacteria                    343389     325139      0.63      18      Genome annotation databases                  

   EnsemblFungi                        18863      18525      0.03      65      Genome annotation databases                  

   EnsemblMetazoa                      12698       9500      0.02      77      Genome annotation databases                  

   EnsemblPlants                       20596      17573      0.04      61      Genome annotation databases                  

   EnsemblProtists                      4440       4315      0.01      97      Genome annotation databases                  

   euHCVdb                                55         44     <0.01     133      Organism-specific databases                  

   EuPathDB                            16762      16762      0.03      69      Organism-specific databases                  

   EvolutionaryTrace                   16511      16511      0.03      71      Other                                        

   ExpressionAtlas                     33898      33898      0.06      52      Gene expression databases                    

   FlyBase                              5949       5575      0.01      88      Organism-specific databases                  

   Gene3D                             464032     342045      0.85       8      Family and domain databases                  

   GeneCards                           20863      19787      0.04      60      Organism-specific databases                  

   GeneFarm                             3373       3361      0.01     101      Organism-specific databases                  

   GeneID                             266949     250439      0.49      23      Genome annotation databases                  

   GeneReviews                          1156       1153     <0.01     112      Organism-specific databases                  

   GeneTree                            55223      55199      0.10      46      Phylogenomic databases                       

   Genevestigator                      68802      68802      0.13      43      Gene expression databases                    

   GeneWiki                            10367      10281      0.02      80      Other                                        

   GenoList                             7075       7063      0.01      83      Organism-specific databases                  

   GenomeRNAi                          21694      21694      0.04      59      Other                                        

   GO                                2658239     519969      4.85       1      Ontologies                                   

   Gramene                              6271       6271      0.01      85      Organism-specific databases                  

   GuidetoPHARMACOLOGY                  2121       2121     <0.01     105      Chemistry                                    

   H-InvDB                              5589       4769      0.01      90      Organism-specific databases                  

   HAMAP                              324463     321501      0.59      20      Family and domain databases                  

   HGNC                                20008      19846      0.04      63      Organism-specific databases                  

   HOGENOM                            387397     387397      0.71      15      Phylogenomic databases                       

   HOVERGEN                            75690      75690      0.14      40      Phylogenomic databases                       

   HPA                                 24719      16223      0.05      58      Organism-specific databases                  

   InParanoid                         135203     135203      0.25      28      Phylogenomic databases                       

   IntAct                              44077      44077      0.08      49      Protein-protein interaction databases        

   InterPro                          1912200     527568      3.49       2      Family and domain databases                  

   KEGG                               485614     458251      0.89       7      Genome annotation databases                  

   KO                                 380898     380404      0.69      16      Phylogenomic databases                       

   LegioList                             765        763     <0.01     118      Organism-specific databases                  

   Leproma                               671        668     <0.01     119      Organism-specific databases                  

   MaizeGDB                              505        500     <0.01     123      Organism-specific databases                  

   MaxQB                               31645      31645      0.06      54      Proteomic databases                          

   MEROPS                              12869      12869      0.02      76      Protein family/group databases               

   MGI                                 16627      16583      0.03      70      Organism-specific databases                  

   MIM                                 19268      14217      0.04      64      Organism-specific databases                  

   MINT                                31622      31622      0.06      55      Protein-protein interaction databases        

   MoonProt                               63         63     <0.01     132      Protein family/group databases               

   mycoCLAP                              345        340     <0.01     127      Protein family/group databases               

   NextBio                             71354      71354      0.13      42      Other                                        

   neXtProt                            20048      20048      0.04      62      Organism-specific databases                  

   OGP                                   376        376     <0.01     126      2D gel databases                             

   OMA                                408474     408474      0.74      12      Phylogenomic databases                       

   Orphanet                             6148       3289      0.01      87      Organism-specific databases                  

   OrthoDB                            390098     390098      0.71      14      Phylogenomic databases                       

   PANTHER                            182114     174898      0.33      25      Family and domain databases                  

   PATRIC                             307935     307900      0.56      21      Genome annotation databases                  

   PaxDb                               66693      66692      0.12      44      Proteomic databases                          

   PDB                                114617      21984      0.21      33      3D structure databases                       

   PDBsum                             114617      21984      0.21      32      3D structure databases                       

   PeptideAtlas                         5160       5160      0.01      94      Proteomic databases                          

   PeroxiBase                            770        754     <0.01     117      Protein family/group databases               

   Pfam                               741300     508588      1.35       4      Family and domain databases                  

   PharmGKB                            18391      18359      0.03      67      Organism-specific databases                  

   PhosphoSite                         33554      33554      0.06      53      PTM databases                                

   PhylomeDB                           94005      94005      0.17      36      Phylogenomic databases                       

   PIR                                122227     111987      0.22      31      Sequence databases                           

   PIRSF                              104328     103291      0.19      34      Family and domain databases                  

   PMAP-CutDB                           1461       1461     <0.01     108      Other                                        

   PomBase                              5139       5103      0.01      95      Organism-specific databases                  

   PRIDE                              123384     123384      0.22      30      Proteomic databases                          

   PRINTS                             136119     120169      0.25      27      Family and domain databases                  

   PRO                                 89309      89309      0.16      37      Other                                        

   ProDom                              29267      29088      0.05      57      Family and domain databases                  

   ProMEX                                405        405     <0.01     125      Proteomic databases                          

   PROSITE                            448076     288660      0.82       9      Family and domain databases                  

   ProteinModelPortal                 373512     373512      0.68      17      3D structure databases                       

   Proteomes                          507656     481998      0.93       6      Other                                        

   PseudoCAP                            1291       1282     <0.01     109      Organism-specific databases                  

   Reactome                            87933      26461      0.16      38      Enzyme and pathway databases                 

   REBASE                                407        407     <0.01     124      Protein family/group databases               

   RefSeq                             643168     479495      1.17       5      Sequence databases                           

   REPRODUCTION-2DPAGE                  1258       1037     <0.01     110      2D gel databases                             

   RGD                                  7844       7840      0.01      81      Organism-specific databases                  

   SABIO-RK                             3003       3003      0.01     102      Enzyme and pathway databases                 

   SGD                                  6737       6732      0.01      84      Organism-specific databases                  

   SignaLink                            2990       2973      0.01     103      Enzyme and pathway databases                 

   SMART                              170443     127672      0.31      26      Family and domain databases                  

   SMR                                224412     224412      0.41      24      3D structure databases                       

   STRING                             403844     403844      0.74      13      Protein-protein interaction databases        

   SUPFAM                             442224     341096      0.81      10      Family and domain databases                  

   SWISS-2DPAGE                         1182       1181     <0.01     111      2D gel databases                             

   TAIR                                13871      13815      0.03      75      Organism-specific databases                  

   TCDB                                 5399       5378      0.01      92      Protein family/group databases               

   TIGRFAMs                           291714     271495      0.53      22      Family and domain databases                  

   TreeFam                             44825      44820      0.08      48      Phylogenomic databases                       

   TubercuList                          2093       2057     <0.01     106      Organism-specific databases                  

   UCD-2DPAGE                            509        500     <0.01     122      2D gel databases                             

   UCSC                                59829      44843      0.11      45      Genome annotation databases                  

   UniCarbKB                             272        272     <0.01     128      PTM databases                                

   UniGene                            103563      93187      0.19      35      Sequence databases                           

   UniPathway                         134536     121927      0.25      29      Enzyme and pathway databases                 

   VectorBase                            615        597     <0.01     120      Genome annotation databases                  

   World-2DPAGE                          923        912     <0.01     116      2D gel databases                             

   WormBase                             5166       4069      0.01      93      Organism-specific databases                  

   Xenbase                              4769       4763      0.01      96      Organism-specific databases                  

   ZFIN                                 2783       2783      0.01     104      Organism-specific databases                  



Total number of cross-referenced databases: 133



6.  AMINO ACID COMPOSITION



   6.1  Composition in percent for the complete database



   Ala (A) 8.26   Gln (Q) 3.93   Leu (L) 9.66   Ser (S) 6.58

   Arg (R) 5.53   Glu (E) 6.74   Lys (K) 5.83   Thr (T) 5.34

   Asn (N) 4.06   Gly (G) 7.08   Met (M) 2.41   Trp (W) 1.09

   Asp (D) 5.46   His (H) 2.27   Phe (F) 3.86   Tyr (Y) 2.92

   Cys (C) 1.37   Ile (I) 5.94   Pro (P) 4.71   Val (V) 6.87



   Asx (B) 0.000  Glx (Z) 0.000  Xaa (X) 0.00



   



   Legend: gray = aliphatic, red = acidic, green = small hydroxy,

           blue = basic, black = aromatic, white = amide, yellow = sulfur





   6.2  Classification of the amino acids by their frequency



   Leu, Ala, Gly, Val, Glu, Ser, Ile, Lys, Arg, Asp, Thr, Pro, Asn, Gln,

   Phe, Tyr, Met, His, Cys, Trp





7.  MISCELLANEOUS STATISTICS



4464 entries are encoded on a mitochondrion, and 3818 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: 76739