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         UniProtKB/Swiss-Prot protein knowledgebase release 2013_11 statistics





1.  INTRODUCTION



Release 2013_11 of 13-Nov-13 of UniProtKB/Swiss-Prot contains 541762 sequence entries,

comprising 192577305 amino acids abstracted from 223949 references. 



212 sequences have been added since release 2013_10, the sequence data of

24 existing entries has been updated and the annotations of

420451 entries have been revised.



Number of fragments: 9083

Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 35659





Protein existence (PE):           entries     %



1: Evidence at protein level        80937   14.9%

2: Evidence at transcript level     63791   11.8%

3: Inferred from homology          379475     70%

4: Predicted                        15658    2.9%

5: Uncertain                         1901    0.4%



The growth of the database is summarized below.



   





2.  TAXONOMIC ORIGIN



   Total number of species represented in this release of UniProtKB/Swiss-Prot: 13041



   The first twenty species represent 114086 sequences:  21.1 % of the total

   number of entries.





   2.1 Table of the frequency of occurrence of species



        Species represented 1x: 5444

                            2x: 1896

                            3x:  991

                            4x:  645

                            5x:  469

                            6x:  392

                            7x:  285

                            8x:  221

                            9x:  212

                           10x:  123

                       11- 20x:  698

                       21- 50x:  410

                       51-100x:  214

                         >100x: 1041





   2.2  Table of the most represented species



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

  Number  Frequency  Species

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

       1      20278  Homo sapiens (Human)

       2      16635  Mus musculus (Mouse)

       3      12490  Arabidopsis thaliana (Mouse-ear cress)

       4       7874  Rattus norvegicus (Rat)

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

       6       5982  Bos taurus (Bovine)

       7       5097  Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)

       8       4431  Escherichia coli (strain K12)

       9       4188  Bacillus subtilis (strain 168)

      10       4127  Dictyostelium discoideum (Slime mold)

      11       3456  Caenorhabditis elegans

      12       3374  Xenopus laevis (African clawed frog)

      13       3208  Drosophila melanogaster (Fruit fly)

      14       3101  Oryza sativa subsp. japonica (Rice)

      15       2907  Danio rerio (Zebrafish) (Brachydanio rerio)

      16       2256  Gallus gallus (Chicken)

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

      18       2041  Mycobacterium tuberculosis

      19       2015  Escherichia coli O157:H7

      20       1787  Methanocaldococcus jannaschii  

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

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

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

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

      25       1679  Shigella flexneri

      26       1412  Sus scrofa (Pig)

      27       1346  Salmonella typhi

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

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

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

      31       1043  Synechocystis sp. (strain PCC 6803 / Kazusa)

      32       1019  Yersinia pestis

      33       1016  Archaeoglobus fulgidus 

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

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

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

      37        925  Staphylococcus aureus (strain N315)

      38        924  Staphylococcus aureus (strain Mu50 / ATCC 700699)

      39        909  Acanthamoeba polyphaga mimivirus (APMV)

      40        905  Kluyveromyces lactis   

      41        899  Staphylococcus aureus (strain COL)

      42        895  Staphylococcus aureus (strain MW2)

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

      44        889  Staphylococcus aureus (strain MSSA476)

      45        888  Staphylococcus aureus (strain MRSA252)

      46        888  Oryctolagus cuniculus (Rabbit)

      47        882  Salmonella choleraesuis (strain SC-B67)

      48        878  Shigella sonnei (strain Ss046)

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

      50        863  Yersinia pseudotuberculosis serotype I (strain IP32953)

      51        862  Candida glabrata   

      52        841  Escherichia coli O9:H4 (strain HS)

      53        837  Neurospora crassa 

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

      55        829  Shigella boydii serotype 4 (strain Sb227)

      56        825  Escherichia coli (strain UTI89 / UPEC)

      57        821  Shigella dysenteriae serotype 1 (strain Sd197)

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

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

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

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

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

      63        783  Aquifex aeolicus (strain VF5)

      64        777  Emericella nidulans  

      65        775  Pasteurella multocida (strain Pm70)

      66        771  Escherichia coli (strain K12 / DH10B)

      67        766  Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)

      68        765  Escherichia coli O127:H6 (strain E2348/69 / EPEC)

      69        765  Escherichia coli (strain K12 / MC4100 / BW2952)

      70        764  Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC)

      71        762  Escherichia coli (strain 55989 / EAEC)

      72        761  Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)

      73        761  Escherichia coli O8 (strain IAI1)

      74        760  Shigella flexneri serotype 5b (strain 8401)

      75        759  Staphylococcus epidermidis (strain ATCC 35984 / RP62A)

      76        758  Staphylococcus epidermidis (strain ATCC 12228)

      77        756  Escherichia coli (strain SE11)

      78        756  Escherichia coli O45:K1 (strain S88 / ExPEC)

      79        753  Escherichia coli O7:K1 (strain IAI39 / ExPEC)

      80        748  Escherichia coli O157:H7 (strain EC4115 / EHEC)

      81        745  Photorhabdus luminescens subsp. laumondii (strain TT01)

      82        740  Staphylococcus aureus (strain NCTC 8325)

      83        736  Bacillus anthracis

      84        736  Bacillus halodurans 

      85        735  Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 8081)

      86        733  Vibrio vulnificus (strain CMCP6)

      87        731  Escherichia coli O81 (strain ED1a)

      88        728  Zea mays (Maize)

      89        721  Salmonella enteritidis PT4 (strain P125109)

      90        717  Vibrio vulnificus (strain YJ016)

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

      92        715  Yersinia pestis bv. Antiqua (strain Nepal516)

      93        714  Salmonella paratyphi A (strain AKU_12601)

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

      95        713  Enterobacter sp. (strain 638)

      96        713  Salmonella agona (strain SL483)

      97        713  Escherichia coli O1:K1 / APEC

      98        713  Salmonella newport (strain SL254)

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

     100        712  Salmonella schwarzengrund (strain CVM19633)

     101        711  Yersinia pestis bv. Antiqua (strain Antiqua)

     102        710  Salmonella heidelberg (strain SL476)

     103        702  Salmonella dublin (strain CT_02021853)

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

     105        696  Klebsiella pneumoniae (strain 342)

     106        695  Pseudomonas putida (strain KT2440)

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

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

     109        689  Pan troglodytes (Chimpanzee)

     110        687  Mycoplasma pneumoniae (strain ATCC 29342 / M129)

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

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

     113        675  Pseudomonas syringae pv. tomato (strain DC3000)

     114        670  Serratia proteamaculans (strain 568)

     115        668  Mycobacterium leprae (strain TN)

     116        667  Yersinia pestis (strain Pestoides F)

     117        666  Staphylococcus aureus (strain USA300)

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

     119        658  Rhizobium sp. (strain NGR234)

     120        658  Bradyrhizobium japonicum (strain USDA 110)

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

     122        653  Debaryomyces hansenii   

     123        651  Escherichia coli

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

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

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

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

     128        635  Shewanella oneidensis (strain MR-1)

     129        635  Oryza sativa subsp. indica (Rice)

     130        634  Yersinia pseudotuberculosis serotype IB (strain PB1/+)

     131        633  Agrobacterium tumefaciens (strain C58 / ATCC 33970)

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

     133        616  Methanothermobacter thermautotrophicus  

     134        616  Treponema pallidum (strain Nichols)

     135        613  Staphylococcus haemolyticus (strain JCSC1435)

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

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

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

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

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

     141        602  Staphylococcus saprophyticus subsp. saprophyticus 

     142        601  Salmonella paratyphi C (strain RKS4594)

     143        600  Yersinia pestis bv. Antiqua (strain Angola)

     144        591  Bacillus cereus (strain ATCC 10987)

     145        591  Listeria innocua serovar 6a (strain CLIP 11262)

     146        589  Pectobacterium carotovorum subsp. carotovorum (strain PC1)

     147        586  Rickettsia prowazekii (strain Madrid E)

     148        583  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        534  Lactococcus lactis subsp. lactis (strain IL1403) (Streptococcus lactis)

     171        533  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        525  Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50) 

     176        522  Xylella fastidiosa (strain 9a5c)

     177        515  Chromobacterium violaceum 

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

     179        513  Corynebacterium glutamicum 

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

     181        512  Xylella fastidiosa (strain Temecula1 / ATCC 700964)

     182        511  Pseudomonas aeruginosa (strain PA7)

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

     184        508  Staphylococcus aureus (strain Newman)

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

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

     187        507  Geobacillus kaustophilus (strain HTA426)

     188        505  Streptomyces avermitilis 

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

     190        502  Deinococcus radiodurans 

     191        500  Pseudomonas entomophila (strain L48)

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

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

     194        496  Bacillus clausii (strain KSM-K16)

     195        495  Burkholderia pseudomallei (strain K96243)

     196        495  Haemophilus influenzae (strain 86-028NP)

     197        494  Proteus mirabilis (strain HI4320)

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

     199        492  Bacillus amyloliquefaciens (strain FZB42)

     200        491  Xanthomonas campestris pv. campestris (strain 8004)

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

     202        487  Shewanella sp. (strain MR-7)

     203        486  Mannheimia succiniciproducens (strain MBEL55E)

     204        484  Pseudomonas aeruginosa (strain LESB58)

     205        484  Staphylococcus aureus (strain Mu3 / ATCC 700698)

     206        484  Shewanella sp. (strain MR-4)

     207        483  Methanosarcina mazei  

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

     209        482  Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)

     210        482  Acinetobacter sp. (strain ADP1)

     211        482  Thermosynechococcus elongatus (strain BP-1)

     212        479  Pyrococcus horikoshii 

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

     214        477  Pseudomonas putida (strain F1 / ATCC 700007)

     215        475  Brucella abortus (strain 2308)

     216        475  Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)

     217        474  Streptococcus pneumoniae (strain ATCC BAA-255 / R6)

     218        474  Burkholderia sp. (strain 383) (Burkholderia cepacia 

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

     220        469  Pyrococcus abyssi (strain GE5 / Orsay)

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

     222        468  Clostridium perfringens (strain 13 / Type A)

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

     224        466  Shewanella frigidimarina (strain NCIMB 400)

     225        466  Pseudomonas putida (strain GB-1)

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

     227        464  Nicotiana tabacum (Common tobacco)

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

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

     230        463  Shewanella sp. (strain ANA-3)

     231        462  Burkholderia mallei (strain ATCC 23344)

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

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

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

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

     236        458  Enterococcus faecalis (strain ATCC 700802 / V583)

     237        455  Staphylococcus aureus (strain JH1)

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

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

     240        454  Ovis aries (Sheep)

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

     242        453  Pseudomonas putida (strain W619)

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

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

     245        452  Shewanella baltica (strain OS185)

     246        451  Aeromonas salmonicida (strain A449)

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

     248        450  Dechloromonas aromatica (strain RCB)

     249        449  Thermoanaerobacter tengcongensis  

     250        449  Staphylococcus aureus (strain JH9)





   

   2.3  Taxonomic distribution of the sequences



   



   Kingdom        sequences (% of the database)

    Archaea           19063 (  4%)

    Bacteria         329256 ( 61%)

    Eukaryota        177020 ( 33%)

    Viruses           16423 (  3%)





   Within Eukaryota:



   



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

     Human                  20279 ( 11%)           (  4%)

     Other Mammalia         45953 ( 26%)           (  8%)

     Other Vertebrata       17535 ( 10%)           (  3%)

     Viridiplantae          34482 ( 19%)           (  6%)

     Fungi                  30967 ( 17%)           (  6%)

     Insecta                 8708 (  5%)           (  2%)

     Nematoda                4332 (  2%)           (  1%)

     Other                  14764 (  8%)           (  3%)







3.  SEQUENCE SIZE



   Repartition of the sequences by size (excluding fragments)



               From   To  Number             From   To   Number

                  1-  50    9078             1001-1100     3761

                 51- 100   41458             1101-1200     2606

                101- 150   57772             1201-1300     2029

                151- 200   57838             1301-1400     1896

                201- 250   56586             1401-1500     1520

                251- 300   50127             1501-1600      740

                301- 350   50307             1601-1700      570

                351- 400   43552             1701-1800      470

                401- 450   35632             1801-1900      434

                451- 500   28678             1901-2000      353

                501- 550   20425             2001-2100      215

                551- 600   14666             2101-2200      295

                601- 650   12299             2201-2300      299

                651- 700    8882             2301-2400      183

                701- 750    7315             2401-2500      139

                751- 800    5211             >2500         1098

                801- 850    4555

                851- 900    5037

                901- 950    3886

                951-1000    2767



   





   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: 2358





   4.1 Table of the frequency of journal citations



        Journals cited 1x:  764

                       2x:  313

                       3x:  159

                       4x:  113

                       5x:   90

                       6x:   75

                       7x:   56

                       8x:   47

                       9x:   36

                      10x:   32

                  11- 20x:  185

                  21- 50x:  192

                  51-100x:  105

                    >100x:  191





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



   Nb    Citations   Journal name

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

    1        21531   Journal of Biological Chemistry

    2         9735   Proceedings of the National Academy of Sciences of the U.S.A.

    3         5817   Journal of Bacteriology

    4         5105   Biochemical and Biophysical Research Communications

    5         4623   Gene

    6         4610   Nucleic Acids Research

    7         4550   Biochemistry

    8         4422   FEBS Letters

    9         4277   The EMBO Journal

   10         3972   Molecular and Cellular Biology

   11         3793   Nature

   12         3658   Journal of Molecular Biology

   13         3268   Biochimica et Biophysica Acta

   14         3259   European Journal of Biochemistry

   15         3096   Cell

   16         2648   Journal of Virology

   17         2548   Biochemical Journal

   18         2517   Science

   19         2513   Genomics

   20         2107   Molecular Microbiology

   21         1928   Plant Physiology

   22         1914   Journal of Cell Biology

   23         1670   Plant Molecular Biology

   24         1658   The American Journal of Human Genetics

   25         1624   Genes and Development

   26         1547   Virology

   27         1536   Nature Genetics

   28         1488   Human Molecular Genetics

   29         1454   Oncogene

   30         1377   Molecular Biology of the Cell

   31         1376   Development

   32         1359   The Plant Cell

   33         1352   Molecular and General Genetics

   34         1327   Human Mutation

   35         1257   Journal of Biochemistry

   36         1238   The Plant Journal

   37         1205   Molecular Cell

   38         1198   Journal of Immunology

   39         1119   Genetics

   40         1111   Structure

   41         1041   Journal of General Virology

   42         1000   Blood

   43          975   Infection and Immunity

   44          974   Journal of Cell Science

   45          948   Archives of Biochemistry and Biophysics

   46          886   Microbiology

   47          852   Developmental Biology

   48          820   Cancer Research

   49          818   Current Biology

   50          792   Yeast

   51          746   FEMS Microbiology Letters

   52          704   Acta Crystallographica, Section D

   53          696   PLoS ONE

   54          671   Protein Science

   55          669   Applied and Environmental Microbiology

   56          666   Journal of Neuroscience

   57          660   Toxicon

   58          631   Human Genetics

   59          627   Nature Structural Biology

   60          626   Mechanisms of Development

   61          602   Neuron

   62          582   Journal of Clinical Investigation

   63          568   American Journal of Physiology

   64          542   Current Genetics

   65          540   The Journal of Experimental Medicine

   66          515   Proteins

   67          502   Plant and Cell Physiology

   68          498   Molecular Endocrinology

   69          480   Mammalian Genome

   70          475   Journal of Neurochemistry

   71          460   Immunogenetics

   72          460   Nature Cell Biology

   73          457   Bioscience, Biotechnology, and Biochemistry

   74          448   Endocrinology

   75          447   The Journal of Clinical Endocrinology and Metabolism

   76          444   Journal of Medical Genetics

   77          435   Molecular and Biochemical Parasitology

   78          401   Journal of Molecular Evolution

   79          387   Experimental Cell Research

   80          380   Molecular Biology and Evolution

   81          377   DNA and Cell Biology

   82          366   DNA Sequence

   83          360   Peptides

   84          356   Nature Structural and Molecular Biology

   85          342   RNA

   86          338   The FEBS Journal

   87          336   Developmental Cell

   88          330   Brain Research. Molecular Brain Research

   89          327   Antimicrobial Agents and Chemotherapy

   90          326   Tissue Antigens

   91          320   Comparative Biochemistry and Physiology

   92          314   Planta

   93          313   Journal of Investigative Dermatology

   94          311   Molecular Pharmacology

   95          294   Biological Chemistry Hoppe-Seyler

   96          293   Biology of Reproduction

   97          292   Eukaryotic Cell

   98          288   Neurology

   99          279   Cytogenetics and Cell Genetics

  100          276   Developmental Dynamics

  101          270   Virus Research

  102          267   Genome Research

  103          267   EMBO Reports

  104          266   Immunity

  105          265   Biochimie

  106          260   Genes to Cells

  107          259   Journal of General Microbiology

  108          255   The FASEB Journal

  109          246   The New England Journal of Medicine

  110          246   Molecular Plant-Microbe Interactions

  111          234   European Journal of Immunology

  112          233   Annals of Neurology

  113          231   Journal of the American Chemical Society

  114          229   European Journal of Human Genetics

  115          218   Acta Crystallographica, Section F

  116          218   Hoppe-Seyler's Zeitschrift fur Physiologische Chemie

  117          216   DNA Research

  118          214   Journal of Human Genetics

  119          209   Investigative Ophthalmology and Visual Science

  120          208   Archives of Microbiology

  121          205   Nature Immunology

  122          202   Journal of Cellular Biochemistry

  123          201   BMC Genomics

  124          200   Journal of Experimental Botany

  125          198   PLoS Genetics

  126          194   American Journal of Medical Genetics. Part A

  127          191   Molecular and Cellular Endocrinology

  128          191   Archives of Virology

  129          190   Journal of Medicinal Chemistry

  130          187   Molecular Immunology

  131          186   Glycobiology

  132          185   Clinical Genetics

  133          180   Circulation Research

  134          176   Diabetes

  135          174   Insect Biochemistry and Molecular Biology

  136          169   Traffic

  137          169   Molecular Phylogenetics and Evolution

  138          168   American Journal of Medical Genetics

  139          167   Phytochemistry

  140          166   International Journal of Cancer

  141          164   Molecular Genetics and Metabolism

  142          160   Molecular Reproduction and Development

  143          160   Cell Cycle

  144          159   Protein Expression and Purification

  145          159   DNA

  146          157   Applied Microbiology and Biotechnology

  147          157   Biological Chemistry

  148          156   Molecular Genetics and Genomics

  149          156   Molecular and Cellular Neuroscience

  150          155   Hemoglobin





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)                      1058281                 1.95                                         

   Journal                            854432     422701      1.58       1                                 

   Submitted to EMBL/GenBank/DDBJ     194713     173849      0.36       2                                 

   Submitted to other databases         6903       6431      0.01       3                                 

   Book citation                         724        710     <0.01       4                                 

   Plant Gene Register                   590        578     <0.01       5                                 

   Thesis                                418        415     <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: 343310



                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Comments (CC)                        2458211                 4.54                                         

   ALLERGEN                              532        532     <0.01      27                                 

   ALTERNATIVE PRODUCTS                22463      22463      0.04      13                                 

   BIOPHYSICOCHEMICAL PROPERTIES        5342       5342      0.01      23                                 

   BIOTECHNOLOGY                         363        361     <0.01      28                                 

   CATALYTIC ACTIVITY                 246306     222537      0.45       5                                 

   CAUTION                              9698       9517      0.02      18                                 

   COFACTOR                           111332     101741      0.21       7                                 

   DEVELOPMENTAL STAGE                 10078      10078      0.02      17                                 

   DISEASE                              5446       3661      0.01      22                                 

   DISRUPTION PHENOTYPE                 6382       6382      0.01      20                                 

   DOMAIN                              40835      35630      0.08      10                                 

   ENZYME REGULATION                   11389      11389      0.02      16                                 

   FUNCTION                           427125     409507      0.79       2                                 

   INDUCTION                           15638      15638      0.03      14                                 

   INTERACTION                         12309      12309      0.02      15                                 

   MASS SPECTROMETRY                    5640       4303      0.01      21                                 

   MISCELLANEOUS                       32986      30474      0.06      12                                 

   PATHWAY                            132239     120351      0.24       6                                 

   PHARMACEUTICAL                         95         95     <0.01      29                                 

   POLYMORPHISM                          905        851     <0.01      24                                 

   PTM                                 45314      35243      0.08       8                                 

   RNA EDITING                           627        627     <0.01      25                                 

   SEQUENCE CAUTION                    41456      41456      0.08       9                                 

   SIMILARITY                         644897     517190      1.19       1                                 

   SUBCELLULAR LOCATION               329402     323284      0.61       3                                 

   SUBUNIT                            249909     249909      0.46       4                                 

   TISSUE SPECIFICITY                  39471      39471      0.07      11                                 

   TOXIC DOSE                            561        524     <0.01      26                                 

   WEB RESOURCE                         9471       7533      0.02      19                                 



Total number of comment topics: 29





                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Features (FT)                        3787518                 6.99                                         

   ACT_SITE                           145279      88913      0.27       9                                 

   BINDING                            306414      82081      0.57       4                                 

   CA_BIND                              3926       1644      0.01      35                                 

   CARBOHYD                           107948      27652      0.20      15                                 

   CHAIN                              548804     535506      1.01       1                                 

   COILED                              20445      14057      0.04      26                                 

   COMPBIAS                            54918      29210      0.10      18                                 

   CONFLICT                           128838      45114      0.24      12                                 

   CROSSLNK                             6940       3978      0.01      34                                 

   DISULFID                           110921      30398      0.20      14                                 

   DNA_BIND                            10448       9523      0.02      31                                 

   DOMAIN                             163088      97123      0.30       7                                 

   HELIX                              186898      18064      0.34       6                                 

   INIT_MET                            16777      16777      0.03      27                                 

   INTRAMEM                             2183        943     <0.01      37                                 

   LIPID                               11955       7596      0.02      30                                 

   METAL                              329013      81360      0.61       3                                 

   MOD_RES                            161134      60675      0.30       8                                 

   MOTIF                               36748      23786      0.07      24                                 

   MUTAGEN                             45958      10621      0.08      21                                 

   NON_CONS                             2042        750     <0.01      38                                 

   NON_STD                               356        281     <0.01      39                                 

   NON_TER                             12228       9347      0.02      29                                 

   NP_BIND                            123768      75036      0.23      13                                 

   PEPTIDE                             10364       7069      0.02      32                                 

   PROPEP                              12727      10944      0.02      28                                 

   REGION                             140036      71074      0.26      10                                 

   REPEAT                              96279      14241      0.18      16                                 

   SIGNAL                              38459      38449      0.07      23                                 

   SITE                                47695      26520      0.09      19                                 

   STRAND                             196055      17064      0.36       5                                 

   TOPO_DOM                           131553      27216      0.24      11                                 

   TRANSIT                              8512       8406      0.02      33                                 

   TRANSMEM                           357325      73835      0.66       2                                 

   TURN                                45568      14651      0.08      22                                 

   UNSURE                               3397        723      0.01      36                                 

   VAR_SEQ                             46587      19547      0.09      20                                 

   VARIANT                             86476      16828      0.16      17                                 

   ZN_FING                             29456      12959      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)               16410579                30.29                                                           

   Allergome                            1530        972     <0.01     101      Protein family/group databases               

   ArachnoServer                         761        753     <0.01     112      Organism-specific databases                  

   ArrayExpress                        33124      33124      0.06      49      Gene expression databases                    

   Bgee                                38805      38805      0.07      46      Gene expression databases                    

   BindingDB                            5033       5033      0.01      87      Other                                        

   BioCyc                             311993     301287      0.58      21      Enzyme and pathway databases                 

   BRENDA                               4342       4331      0.01      92      Enzyme and pathway databases                 

   CAZy                                 7662       6900      0.01      75      Protein family/group databases               

   CGD                                   746        724     <0.01     113      Organism-specific databases                  

   ChEMBL                               5708       5708      0.01      80      Other                                        

   ChiTaRS                             12541      12536      0.02      69      Other                                        

   CleanEx                             30083      29442      0.06      51      Gene expression databases                    

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

   ConoServer                            926        844     <0.01     106      Organism-specific databases                  

   CTD                                 70516      69828      0.13      39      Organism-specific databases                  

   CYGD                                 5596       5593      0.01      81      Organism-specific databases                  

   dictyBase                            4201       4085      0.01      94      Organism-specific databases                  

   DIP                                 14730      14649      0.03      67      Protein-protein interaction databases        

   DisProt                               605        602     <0.01     117      3D structure databases                       

   DMDM                                16756      16753      0.03      63      Polymorphism databases                       

   DNASU                               18733      18662      0.03      60      Protocols and materials databases            

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

   DrugBank                             5319       1628      0.01      84      Other                                        

   EchoBASE                             4161       4161      0.01      95      Organism-specific databases                  

   EcoGene                              4292       4290      0.01      93      Organism-specific databases                  

   eggNOG                             431303     431303      0.80      10      Phylogenomic databases                       

   EMBL                               944808     530468      1.74       3      Sequence databases                           

   Ensembl                             84757      48906      0.16      36      Genome annotation databases                  

   EnsemblBacteria                    348379     327941      0.64      18      Genome annotation databases                  

   EnsemblFungi                        18768      18462      0.03      59      Genome annotation databases                  

   EnsemblMetazoa                      12445       9329      0.02      72      Genome annotation databases                  

   EnsemblPlants                       16423      14677      0.03      66      Genome annotation databases                  

   EnsemblProtists                      4575       4448      0.01      91      Genome annotation databases                  

   euHCVdb                                55         44     <0.01     126      Organism-specific databases                  

   EuPathDB                              774        774     <0.01     109      Organism-specific databases                  

   EvolutionaryTrace                   16649      16649      0.03      64      Other                                        

   FlyBase                              5910       5536      0.01      79      Organism-specific databases                  

   Gene3D                             357415     272676      0.66      17      Family and domain databases                  

   GeneCards                           20055      19783      0.04      56      Organism-specific databases                  

   GeneFarm                             3229       3218      0.01      96      Organism-specific databases                  

   GeneID                             494826     462931      0.91       6      Genome annotation databases                  

   GeneTree                            38013      38000      0.07      47      Phylogenomic databases                       

   Genevestigator                      67718      67718      0.12      41      Gene expression databases                    

   GeneWiki                            10374      10286      0.02      73      Other                                        

   GenoList                             7074       7062      0.01      76      Organism-specific databases                  

   GenomeRNAi                          21317      21317      0.04      54      Other                                        

   GO                                2444753     512219      4.51       1      Ontologies                                   

   Gramene                              6058       6058      0.01      78      Organism-specific databases                  

   H-InvDB                              5594       4773      0.01      82      Organism-specific databases                  

   HAMAP                              317069     316650      0.59      20      Family and domain databases                  

   HGNC                                19886      19718      0.04      57      Organism-specific databases                  

   HOGENOM                            386068     386068      0.71      14      Phylogenomic databases                       

   HOVERGEN                            75607      75607      0.14      37      Phylogenomic databases                       

   HPA                                 19099      14747      0.04      58      Organism-specific databases                  

   InParanoid                          70385      70385      0.13      40      Phylogenomic databases                       

   IntAct                              40979      40979      0.08      45      Protein-protein interaction databases        

   InterPro                          1827208     519803      3.37       2      Family and domain databases                  

   IPI                                 98561      68293      0.18      35      Sequence databases                           

   KEGG                               479222     450279      0.88       8      Genome annotation databases                  

   KO                                 376631     376201      0.70      16      Phylogenomic databases                       

   LegioList                             765        763     <0.01     111      Organism-specific databases                  

   Leproma                               671        668     <0.01     115      Organism-specific databases                  

   MaizeGDB                              502        497     <0.01     119      Organism-specific databases                  

   MEROPS                              12511      12511      0.02      70      Protein family/group databases               

   MGI                                 16547      16502      0.03      65      Organism-specific databases                  

   MIM                                 18373      13826      0.03      62      Organism-specific databases                  

   MINT                                31549      31549      0.06      50      Protein-protein interaction databases        

   mycoCLAP                              282        277     <0.01     122      Protein family/group databases               

   NextBio                             71041      71041      0.13      38      Other                                        

   neXtProt                            20126      20126      0.04      55      Organism-specific databases                  

   OGP                                   377        377     <0.01     121      2D gel databases                             

   OMA                                400691     400691      0.74      11      Phylogenomic databases                       

   Orphanet                             5465       2931      0.01      83      Organism-specific databases                  

   OrthoDB                            390435     390435      0.72      13      Phylogenomic databases                       

   PANTHER                            187495     176555      0.35      25      Family and domain databases                  

   PATRIC                             309114     309083      0.57      22      Genome annotation databases                  

   PaxDb                               66727      66727      0.12      42      Proteomic databases                          

   PDB                                100884      20204      0.19      33      3D structure databases                       

   PDBsum                             100884      20204      0.19      32      3D structure databases                       

   PeptideAtlas                         5162       5162      0.01      85      Proteomic databases                          

   PeroxiBase                            772        756     <0.01     110      Protein family/group databases               

   Pfam                               726173     499661      1.34       4      Family and domain databases                  

   PharmGKB                            18387      18359      0.03      61      Organism-specific databases                  

   PhosphoSite                         33569      33569      0.06      48      PTM databases                                

   PhosSite                              699        687     <0.01     114      PTM databases                                

   PhylomeDB                           27771      27771      0.05      53      Phylogenomic databases                       

   PIR                                119112     108936      0.22      30      Sequence databases                           

   PIRSF                              101525     100585      0.19      31      Family and domain databases                  

   PMAP-CutDB                           1458       1458     <0.01     102      Other                                        

   PomBase                              5015       4968      0.01      88      Organism-specific databases                  

   PptaseDB                               40         40     <0.01     127      Protein family/group databases               

   PRIDE                              123184     123184      0.23      29      Proteomic databases                          

   PRINTS                             136824     120591      0.25      27      Family and domain databases                  

   PRO                                 57861      57861      0.11      43      Other                                        

   ProDom                              29294      29115      0.05      52      Family and domain databases                  

   ProMEX                                864        864     <0.01     108      Proteomic databases                          

   PROSITE                            488452     307478      0.90       7      Family and domain databases                  

   ProtClustDB                        344569     344569      0.64      19      Phylogenomic databases                       

   ProteinModelPortal                 435619     435619      0.80       9      3D structure databases                       

   PseudoCAP                            1258       1249     <0.01     103      Organism-specific databases                  

   Reactome                            14506       8315      0.03      68      Enzyme and pathway databases                 

   REBASE                                405        405     <0.01     120      Protein family/group databases               

   RefSeq                             544678     473367      1.01       5      Sequence databases                           

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

   RGD                                  7793       7789      0.01      74      Organism-specific databases                  

   SABIO-RK                             2598       2598     <0.01      99      Enzyme and pathway databases                 

   SGD                                  6640       6635      0.01      77      Organism-specific databases                  

   SignaLink                            2959       2959      0.01      97      Enzyme and pathway databases                 

   SMART                              168283     125950      0.31      26      Family and domain databases                  

   SMR                                220699     220699      0.41      24      3D structure databases                       

   STRING                             397030     397029      0.73      12      Protein-protein interaction databases        

   SUPFAM                             378316     292870      0.70      15      Family and domain databases                  

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

   TAIR                                12499      12443      0.02      71      Organism-specific databases                  

   TCDB                                 5092       5070      0.01      86      Protein family/group databases               

   TIGRFAMs                           290668     270030      0.54      23      Family and domain databases                  

   TubercuList                          2054       2018     <0.01     100      Organism-specific databases                  

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

   UCSC                                44842      44842      0.08      44      Genome annotation databases                  

   UniCarbKB                             272        272     <0.01     123      PTM databases                                

   UniGene                             99763      90524      0.18      34      Sequence databases                           

   UniPathway                         132092     120209      0.24      28      Enzyme and pathway databases                 

   VectorBase                            606        588     <0.01     116      Genome annotation databases                  

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

   WormBase                             4973       3985      0.01      89      Organism-specific databases                  

   Xenbase                              4746       4740      0.01      90      Organism-specific databases                  

   ZFIN                                 2751       2751      0.01      98      Organism-specific databases                  



Total number of cross-referenced databases: 127



6.  AMINO ACID COMPOSITION



   6.1  Composition in percent for the complete database



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

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

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

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

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



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



   



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

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





   6.2  Classification of the amino acids by their frequency



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

   Phe, Tyr, Met, His, Cys, Trp





7.  MISCELLANEOUS STATISTICS



4464 entries are encoded on a mitochondrion, and 3731 are encoded on a plasmid.



12188 entries are encoded on a plastid, 

of which 21 are encoded on apicoplasts, 

11623 on chloroplasts, 

51 on organellar chromatophores,

145 on cyanelles, 

149 on non-photosynthetic plastids and 

199 on unspecified types of plastid.



Number of entries with at least one sequence correction: 75256