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         UniProtKB/Swiss-Prot protein knowledgebase release 2014_05 statistics





1.  INTRODUCTION



Release 2014_05 of 14-May-14 of UniProtKB/Swiss-Prot contains 545388 sequence entries,

comprising 193948795 amino acids abstracted from 228536 references. 



403 sequences have been added since release 2014_04, the sequence data of

72 existing entries has been updated and the annotations of

433923 entries have been revised.



Number of fragments: 9096

Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 36731





Protein existence (PE):           entries     %



1: Evidence at protein level        82702   15.2%

2: Evidence at transcript level     62490   11.5%

3: Inferred from homology          382436   70.1%

4: Predicted                        15871    2.9%

5: Uncertain                         1889    0.3%



The growth of the database is summarized below.



   





2.  TAXONOMIC ORIGIN



   Total number of species represented in this release of UniProtKB/Swiss-Prot: 13084



   The first twenty species represent 114713 sequences:    21 % of the total

   number of entries.





   2.1 Table of the frequency of occurrence of species



        Species represented 1x: 5445

                            2x: 1900

                            3x:  998

                            4x:  651

                            5x:  471

                            6x:  398

                            7x:  287

                            8x:  222

                            9x:  212

                           10x:  121

                       11- 20x:  703

                       21- 50x:  420

                       51-100x:  210

                         >100x: 1046





   2.2  Table of the most represented species



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

  Number  Frequency  Species

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

       1      20264  Homo sapiens (Human)

       2      16669  Mus musculus (Mouse)

       3      12851  Arabidopsis thaliana (Mouse-ear cress)

       4       7897  Rattus norvegicus (Rat)

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

       6       5984  Bos taurus (Bovine)

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

       8       4431  Escherichia coli (strain K12)

       9       4185  Bacillus subtilis (strain 168)

      10       4127  Dictyostelium discoideum (Slime mold)

      11       3467  Caenorhabditis elegans

      12       3383  Xenopus laevis (African clawed frog)

      13       3225  Drosophila melanogaster (Fruit fly)

      14       3182  Oryza sativa subsp. japonica (Rice)

      15       2922  Danio rerio (Zebrafish) (Brachydanio rerio)

      16       2258  Gallus gallus (Chicken)

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

      18       2025  Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)

      19       2015  Escherichia coli O157:H7

      20       1885  Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)

      21       1787  Methanocaldococcus jannaschii  

      22       1773  Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

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

      24       1700  Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)

      25       1684  Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

      26       1679  Shigella flexneri

      27       1413  Sus scrofa (Pig)

      28       1346  Salmonella typhi

      29       1270  Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228)

      30       1242  Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97)

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

      32       1048  Synechocystis sp. (strain PCC 6803 / Kazusa)

      33       1021  Archaeoglobus fulgidus 

      34       1019  Yersinia pestis

      35        955  Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)

      36        930  Salmonella paratyphi A (strain ATCC 9150 / SARB42)

      37        926  Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056)  

      38        925  Staphylococcus aureus (strain N315)

      39        924  Staphylococcus aureus (strain Mu50 / ATCC 700699)

      40        922  Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)

      41        909  Acanthamoeba polyphaga mimivirus (APMV)

      42        905  Kluyveromyces lactis   

      43        899  Staphylococcus aureus (strain COL)

      44        895  Staphylococcus aureus (strain MW2)

      45        889  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        875  Rhizobium meliloti (strain 1021) (Ensifer meliloti) (Sinorhizobium meliloti)

      52        863  Yersinia pseudotuberculosis serotype I (strain IP32953)

      53        862  Candida glabrata   

      54        841  Escherichia coli O9:H4 (strain HS)

      55        837  Neurospora crassa 

      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        821  Shigella dysenteriae serotype 1 (strain Sd197)

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

      61        810  Canis familiaris (Dog) (Canis lupus familiaris)

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

      63        788  Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)

      64        784  Emericella nidulans  

      65        783  Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672) 

      66        783  Aquifex aeolicus (strain VF5)

      67        775  Pasteurella multocida (strain Pm70)

      68        771  Escherichia coli (strain K12 / DH10B)

      69        767  Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)

      70        765  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        748  Escherichia coli O157:H7 (strain EC4115 / EHEC)

      82        745  Photorhabdus luminescens subsp. laumondii (strain TT01)

      83        741  Zea mays (Maize)

      84        740  Staphylococcus aureus (strain NCTC 8325)

      85        737  Bacillus halodurans 

      86        736  Bacillus anthracis

      87        735  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        721  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        714  Salmonella paratyphi A (strain AKU_12601)

      95        713  Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)

      96        713  Enterobacter sp. (strain 638)

      97        713  Salmonella agona (strain SL483)

      98        713  Escherichia coli O1:K1 / APEC

      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        702  Salmonella dublin (strain CT_02021853)

     105        700  Pseudomonas putida (strain KT2440)

     106        698  Shigella boydii serotype 18 (strain CDC 3083-94 / BS512)

     107        696  Klebsiella pneumoniae (strain 342)

     108        695  Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73)

     109        691  Nostoc sp. (strain PCC 7120 / UTEX 2576)

     110        689  Pan troglodytes (Chimpanzee)

     111        687  Mycoplasma pneumoniae (strain ATCC 29342 / M129)

     112        683  Salmonella gallinarum (strain 287/91 / NCTC 13346)

     113        678  Citrobacter koseri (strain ATCC BAA-895 / CDC 4225-83 / SGSC4696)

     114        677  Oryza sativa subsp. indica (Rice)

     115        676  Pseudomonas syringae pv. tomato (strain DC3000)

     116        670  Serratia proteamaculans (strain 568)

     117        668  Mycobacterium leprae (strain TN)

     118        667  Yersinia pestis (strain Pestoides F)

     119        667  Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) 

     120        666  Staphylococcus aureus (strain USA300)

     121        659  Bradyrhizobium diazoefficiens 

     122        658  Escherichia coli

     123        658  Rhizobium sp. (strain NGR234)

     124        654  Bacillus cereus (strain ATCC 14579 / DSM 31)

     125        653  Debaryomyces hansenii   

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

     127        643  Staphylococcus aureus (strain bovine RF122 / ET3-1)

     128        642  Salmonella arizonae (strain ATCC BAA-731 / CDC346-86 / RSK2980)

     129        638  Yersinia pseudotuberculosis serotype O:3 (strain YPIII)

     130        635  Shewanella oneidensis (strain MR-1)

     131        635  Agrobacterium tumefaciens (strain C58 / ATCC 33970)

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

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

     134        619  Methanothermobacter thermautotrophicus  

     135        616  Treponema pallidum (strain Nichols)

     136        613  Staphylococcus haemolyticus (strain JCSC1435)

     137        607  Rhizobium loti (strain MAFF303099) (Mesorhizobium loti)

     138        605  Xanthomonas campestris pv. campestris (strain ATCC 33913 / NCPPB 528 / LMG 568)

     139        604  Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)

     140        602  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        591  Bacillus cereus (strain ATCC 10987)

     146        591  Listeria innocua serovar 6a (strain CLIP 11262)

     147        589  Pectobacterium carotovorum subsp. carotovorum (strain PC1)

     148        588  Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)

     149        586  Rickettsia prowazekii (strain Madrid E)

     150        579  Neisseria meningitidis serogroup B (strain MC58)

     151        576  Brucella suis biovar 1 (strain 1330)

     152        573  Brucella melitensis biotype 1 (strain 16M / ATCC 23456 / NCTC 10094)

     153        572  Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) 

     154        568  Caenorhabditis briggsae

     155        567  Bacillus thuringiensis subsp. konkukian (strain 97-27)

     156        567  Pseudomonas syringae pv. syringae (strain B728a)

     157        566  Helicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99)

     158        565  Caulobacter crescentus (strain ATCC 19089 / CB15)

     159        564  Bacillus licheniformis (strain DSM 13 / ATCC 14580)

     160        564  Vibrio fischeri (strain ATCC 700601 / ES114)

     161        564  Pseudomonas aeruginosa (strain UCBPP-PA14)

     162        562  Buchnera aphidicola subsp. Schizaphis graminum (strain Sg)

     163        561  Bacillus cereus (strain ZK / E33L)

     164        557  Clostridium acetobutylicum 

     165        556  Xanthomonas axonopodis pv. citri (strain 306)

     166        552  Oceanobacillus iheyensis (strain DSM 14371 / JCM 11309 / KCTC 3954 / HTE831)

     167        552  Neisseria meningitidis serogroup A / serotype 4A (strain Z2491)

     168        552  Pseudomonas fluorescens (strain Pf0-1)

     169        546  Pseudomonas fluorescens (strain Pf-5 / ATCC BAA-477)

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

     171        536  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        515  Chromobacterium violaceum 

     179        515  Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251)

     180        514  Corynebacterium glutamicum 

     181        513  Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)

     182        512  Xylella fastidiosa (strain Temecula1 / ATCC 700964)

     183        511  Pseudomonas aeruginosa (strain PA7)

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

     185        508  Staphylococcus aureus (strain Newman)

     186        508  Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253)

     187        507  Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp)

     188        507  Geobacillus kaustophilus (strain HTA426)

     189        506  Streptomyces avermitilis 

     190        503  Deinococcus radiodurans 

     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        492  Bacillus amyloliquefaciens subsp. plantarum 

     201        491  Xanthomonas campestris pv. campestris (strain 8004)

     202        490  Vibrio campbellii (strain ATCC BAA-1116 / BB120)

     203        488  Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)

     204        488  Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1) 

     205        487  Shewanella sp. (strain MR-7)

     206        486  Mannheimia succiniciproducens (strain MBEL55E)

     207        484  Pseudomonas aeruginosa (strain LESB58)

     208        484  Staphylococcus aureus (strain Mu3 / ATCC 700698)

     209        484  Shewanella sp. (strain MR-4)

     210        483  Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1)

     211        483  Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)

     212        483  Methanosarcina mazei  

     213        483  Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195)

     214        482  Thermosynechococcus elongatus (strain BP-1)

     215        481  Pyrococcus horikoshii 

     216        479  Synechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)

     217        477  Pseudomonas putida (strain F1 / ATCC 700007)

     218        477  Brucella abortus (strain 2308)

     219        476  Streptococcus pneumoniae (strain ATCC BAA-255 / R6)

     220        474  Burkholderia sp. (strain 383) (Burkholderia cepacia 

     221        473  Aspergillus oryzae (strain ATCC 42149 / RIB 40) (Yellow koji mold)

     222        470  Pyrococcus abyssi (strain GE5 / Orsay)

     223        468  Clostridium perfringens (strain 13 / Type A)

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

     225        466  Xanthomonas campestris pv. vesicatoria (strain 85-10)

     226        466  Shewanella frigidimarina (strain NCIMB 400)

     227        466  Pseudomonas putida (strain GB-1)

     228        464  Nicotiana tabacum (Common tobacco)

     229        464  Aeromonas hydrophila subsp. hydrophila (strain ATCC 7966 / NCIB 9240)

     230        463  Anabaena variabilis (strain ATCC 29413 / PCC 7937)

     231        463  Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)

     232        463  Shewanella sp. (strain ANA-3)

     233        462  Burkholderia mallei (strain ATCC 23344)

     234        461  Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)

     235        461  Rhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)

     236        459  Cupriavidus pinatubonensis (strain JMP 134 / LMG 1197) (Ralstonia eutropha 

     237        459  Enterococcus faecalis (strain ATCC 700802 / V583)

     238        457  Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)

     239        456  Campylobacter jejuni subsp. jejuni serotype O:2 (strain NCTC 11168)

     240        455  Staphylococcus aureus (strain JH1)

     241        455  Ovis aries (Sheep)

     242        454  Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath)

     243        454  Xanthomonas oryzae pv. oryzae (strain MAFF 311018)

     244        453  Pseudomonas putida (strain W619)

     245        453  Rickettsia felis (strain ATCC VR-1525 / URRWXCal2) (Rickettsia azadi)

     246        452  Shewanella baltica (strain OS185)

     247        451  Aeromonas salmonicida (strain A449)

     248        450  Mycobacterium paratuberculosis (strain ATCC BAA-968 / K-10)

     249        450  Streptococcus mutans serotype c (strain ATCC 700610 / UA159)

     250        450  Dechloromonas aromatica (strain RCB)





   

   2.3  Taxonomic distribution of the sequences



   



   Kingdom        sequences (% of the database)

    Archaea           19249 (  4%)

    Bacteria         331374 ( 61%)

    Eukaryota        178286 ( 33%)

    Viruses           16479 (  3%)





   Within Eukaryota:



   



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

     Human                  20265 ( 11%)           (  4%)

     Other Mammalia         46039 ( 26%)           (  8%)

     Other Vertebrata       17696 ( 10%)           (  3%)

     Viridiplantae          35141 ( 20%)           (  6%)

     Fungi                  31174 ( 17%)           (  6%)

     Insecta                 8737 (  5%)           (  2%)

     Nematoda                4343 (  2%)           (  1%)

     Other                  14891 (  8%)           (  3%)







3.  SEQUENCE SIZE



   Repartition of the sequences by size (excluding fragments)



               From   To  Number             From   To   Number

                  1-  50    9085             1001-1100     3786

                 51- 100   41757             1101-1200     2628

                101- 150   58201             1201-1300     2042

                151- 200   58091             1301-1400     1913

                201- 250   56904             1401-1500     1530

                251- 300   50488             1501-1600      748

                301- 350   50647             1601-1700      574

                351- 400   43845             1701-1800      480

                401- 450   35921             1801-1900      436

                451- 500   28884             1901-2000      354

                501- 550   20598             2001-2100      217

                551- 600   14781             2101-2200      296

                601- 650   12388             2201-2300      299

                651- 700    8956             2301-2400      184

                701- 750    7375             2401-2500      140

                751- 800    5270             >2500         1103

                801- 850    4595

                851- 900    5072

                901- 950    3917

                951-1000    2787



   





   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: 2412





   4.1 Table of the frequency of journal citations



        Journals cited 1x:  791

                       2x:  314

                       3x:  160

                       4x:  117

                       5x:   91

                       6x:   78

                       7x:   58

                       8x:   50

                       9x:   30

                      10x:   40

                  11- 20x:  185

                  21- 50x:  198

                  51-100x:  107

                    >100x:  193





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



   Nb    Citations   Journal name

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

    1        21962   Journal of Biological Chemistry

    2         9962   Proceedings of the National Academy of Sciences of the U.S.A.

    3         5957   Journal of Bacteriology

    4         5158   Biochemical and Biophysical Research Communications

    5         4671   Nucleic Acids Research

    6         4651   Biochemistry

    7         4651   Gene

    8         4460   FEBS Letters

    9         4349   The EMBO Journal

   10         4028   Molecular and Cellular Biology

   11         3891   Nature

   12         3767   Journal of Molecular Biology

   13         3303   Biochimica et Biophysica Acta

   14         3272   European Journal of Biochemistry

   15         3165   Cell

   16         2689   Journal of Virology

   17         2583   Science

   18         2581   Biochemical Journal

   19         2517   Genomics

   20         2179   Molecular Microbiology

   21         1989   Plant Physiology

   22         1952   Journal of Cell Biology

   23         1717   The American Journal of Human Genetics

   24         1690   Plant Molecular Biology

   25         1653   Genes and Development

   26         1572   Virology

   27         1559   Nature Genetics

   28         1527   Human Molecular Genetics

   29         1467   Oncogene

   30         1444   The Plant Cell

   31         1419   Molecular Biology of the Cell

   32         1398   Development

   33         1355   Molecular and General Genetics

   34         1350   Human Mutation

   35         1298   The Plant Journal

   36         1269   Journal of Biochemistry

   37         1255   Molecular Cell

   38         1213   Journal of Immunology

   39         1138   Structure

   40         1137   Genetics

   41         1043   Journal of General Virology

   42         1015   Blood

   43         1004   Infection and Immunity

   44         1003   Journal of Cell Science

   45          956   Archives of Biochemistry and Biophysics

   46          927   Microbiology

   47          863   Developmental Biology

   48          854   Current Biology

   49          837   PLoS ONE

   50          824   Cancer Research

   51          806   Yeast

   52          758   FEMS Microbiology Letters

   53          726   Acta Crystallographica, Section D

   54          691   Protein Science

   55          689   Applied and Environmental Microbiology

   56          684   Journal of Neuroscience

   57          682   Toxicon

   58          639   Human Genetics

   59          631   Nature Structural Biology

   60          626   Mechanisms of Development

   61          618   Neuron

   62          591   Journal of Clinical Investigation

   63          575   American Journal of Physiology

   64          548   The Journal of Experimental Medicine

   65          544   Current Genetics

   66          527   Proteins

   67          521   Plant and Cell Physiology

   68          504   Molecular Endocrinology

   69          482   Mammalian Genome

   70          478   Journal of Neurochemistry

   71          471   Nature Cell Biology

   72          462   Bioscience, Biotechnology, and Biochemistry

   73          460   Immunogenetics

   74          458   Journal of Medical Genetics

   75          456   Endocrinology

   76          448   The Journal of Clinical Endocrinology and Metabolism

   77          435   Molecular and Biochemical Parasitology

   78          402   Journal of Molecular Evolution

   79          395   Experimental Cell Research

   80          381   Molecular Biology and Evolution

   81          378   DNA and Cell Biology

   82          373   Nature Structural and Molecular Biology

   83          371   Peptides

   84          368   DNA Sequence

   85          355   The FEBS Journal

   86          353   RNA

   87          347   Developmental Cell

   88          340   Eukaryotic Cell

   89          337   Antimicrobial Agents and Chemotherapy

   90          330   Brain Research. Molecular Brain Research

   91          326   Tissue Antigens

   92          323   Comparative Biochemistry and Physiology

   93          322   Planta

   94          321   Journal of Investigative Dermatology

   95          315   Molecular Pharmacology

   96          299   Biology of Reproduction

   97          294   Biological Chemistry Hoppe-Seyler

   98          290   Neurology

   99          281   Cytogenetics and Cell Genetics

  100          280   Developmental Dynamics

  101          279   EMBO Reports

  102          276   Immunity

  103          273   Biochimie

  104          270   Virus Research

  105          269   Genome Research

  106          268   Genes to Cells

  107          267   The FASEB Journal

  108          263   Journal of General Microbiology

  109          255   The New England Journal of Medicine

  110          252   Molecular Plant-Microbe Interactions

  111          243   Journal of the American Chemical Society

  112          237   European Journal of Human Genetics

  113          236   Annals of Neurology

  114          235   European Journal of Immunology

  115          233   Acta Crystallographica, Section F

  116          231   PLoS Genetics

  117          218   Hoppe-Seyler's Zeitschrift fur Physiologische Chemie

  118          218   Investigative Ophthalmology and Visual Science

  119          217   DNA Research

  120          214   Journal of Human Genetics

  121          212   Nature Immunology

  122          210   Archives of Microbiology

  123          209   Journal of Experimental Botany

  124          207   BMC Genomics

  125          204   Journal of Cellular Biochemistry

  126          198   American Journal of Medical Genetics. Part A

  127          196   Glycobiology

  128          195   Journal of Medicinal Chemistry

  129          193   Archives of Virology

  130          192   Molecular and Cellular Endocrinology

  131          191   Clinical Genetics

  132          190   Molecular Immunology

  133          183   Diabetes

  134          183   Circulation Research

  135          176   Insect Biochemistry and Molecular Biology

  136          175   Cell Cycle

  137          175   Traffic

  138          172   Phytochemistry

  139          171   Molecular Genetics and Metabolism

  140          170   PLoS Pathogens

  141          169   Molecular Phylogenetics and Evolution

  142          168   American Journal of Medical Genetics

  143          167   International Journal of Cancer

  144          165   Protein Expression and Purification

  145          164   Applied Microbiology and Biotechnology

  146          160   Molecular Reproduction and Development

  147          160   Biological Chemistry

  148          159   DNA

  149          158   PLoS Biology

  150          157   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)                      1075201                 1.97                                         

   Journal                            877672     427631      1.61       1                                 

   Submitted to EMBL/GenBank/DDBJ     188290     167671      0.35       2                                 

   Submitted to other databases         6984       6496      0.01       3                                 

   Book citation                         725        711     <0.01       4                                 

   Plant Gene Register                   593        581     <0.01       5                                 

   Thesis                                421        418     <0.01       6                                 

   Unpublished observations              320        316     <0.01       7                                 

   Patent                                190        187     <0.01       8                                 

   Worm Breeder's Gazette                  6          6     <0.01       9                                 



Total number of distinct authors cited in UniProtKB/Swiss-Prot: 350037



                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Comments (CC)                        2491115                 4.57                                         

   ALLERGEN                              660        660     <0.01      25                                 

   ALTERNATIVE PRODUCTS                22890      22890      0.04      13                                 

   BIOPHYSICOCHEMICAL PROPERTIES        5677       5677      0.01      22                                 

   BIOTECHNOLOGY                         377        375     <0.01      28                                 

   CATALYTIC ACTIVITY                 249781     225462      0.46       5                                 

   CAUTION                              9847       9665      0.02      18                                 

   COFACTOR                           113944     104556      0.21       7                                 

   DEVELOPMENTAL STAGE                 10271      10271      0.02      17                                 

   DISEASE                              5615       3770      0.01      23                                 

   DISRUPTION PHENOTYPE                 7201       7201      0.01      20                                 

   DOMAIN                              41841      36446      0.08       9                                 

   ENZYME REGULATION                   12621      12621      0.02      16                                 

   FUNCTION                           431419     413588      0.79       2                                 

   INDUCTION                           16299      16299      0.03      14                                 

   INTERACTION                         12818      12818      0.02      15                                 

   MASS SPECTROMETRY                    5728       4365      0.01      21                                 

   MISCELLANEOUS                       33530      30964      0.06      12                                 

   PATHWAY                            133181     121181      0.24       6                                 

   PHARMACEUTICAL                         95         95     <0.01      29                                 

   POLYMORPHISM                         1033        978     <0.01      24                                 

   PTM                                 46626      36027      0.09       8                                 

   RNA EDITING                           627        627     <0.01      26                                 

   SEQUENCE CAUTION                    41756      41756      0.08      10                                 

   SIMILARITY                         650349     520505      1.19       1                                 

   SUBCELLULAR LOCATION               332369     326011      0.61       3                                 

   SUBUNIT                            254311     254311      0.47       4                                 

   TISSUE SPECIFICITY                  40296      40296      0.07      11                                 

   TOXIC DOSE                            580        540     <0.01      27                                 

   WEB RESOURCE                         9373       7517      0.02      19                                 



Total number of comment topics: 29





                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Features (FT)                        3878534                 7.11                                         

   ACT_SITE                           148436      90984      0.27       9                                 

   BINDING                            316808      84731      0.58       4                                 

   CA_BIND                              3958       1662      0.01      35                                 

   CARBOHYD                           108847      27865      0.20      15                                 

   CHAIN                              552783     539066      1.01       1                                 

   COILED                              20650      14200      0.04      26                                 

   COMPBIAS                            55832      29704      0.10      18                                 

   CONFLICT                           129599      45328      0.24      12                                 

   CROSSLNK                             7075       4044      0.01      34                                 

   DISULFID                           113006      30950      0.21      14                                 

   DNA_BIND                            10697       9719      0.02      31                                 

   DOMAIN                             165754      98741      0.30       8                                 

   HELIX                              194755      18701      0.36       6                                 

   INIT_MET                            17625      17625      0.03      27                                 

   INTRAMEM                             2211        968     <0.01      37                                 

   LIPID                               12270       7795      0.02      29                                 

   METAL                              338731      83972      0.62       3                                 

   MOD_RES                            173031      62323      0.32       7                                 

   MOTIF                               37527      24381      0.07      24                                 

   MUTAGEN                             48470      11128      0.09      20                                 

   NON_CONS                             2061        751     <0.01      38                                 

   NON_STD                               356        281     <0.01      39                                 

   NON_TER                             12244       9361      0.02      30                                 

   NP_BIND                            128336      76358      0.24      13                                 

   PEPTIDE                             10435       7138      0.02      32                                 

   PROPEP                              12936      11140      0.02      28                                 

   REGION                             148230      74322      0.27      10                                 

   REPEAT                              97048      14312      0.18      16                                 

   SIGNAL                              39011      39001      0.07      23                                 

   SITE                                48731      27022      0.09      19                                 

   STRAND                             204124      17660      0.37       5                                 

   TOPO_DOM                           132262      27422      0.24      11                                 

   TRANSIT                              8617       8511      0.02      33                                 

   TRANSMEM                           360197      74470      0.66       2                                 

   TURN                                47478      15191      0.09      22                                 

   UNSURE                               3403        725      0.01      36                                 

   VAR_SEQ                             47840      19949      0.09      21                                 

   VARIANT                             87541      16863      0.16      17                                 

   ZN_FING                             29619      13074      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)               16283668                29.86                                                           

   Allergome                            1631       1060     <0.01     103      Protein family/group databases               

   ArachnoServer                         763        755     <0.01     115      Organism-specific databases                  

   ArrayExpress                        21878      21878      0.04      55      Gene expression databases                    

   Bgee                                38832      38832      0.07      46      Gene expression databases                    

   BindingDB                            4991       4991      0.01      90      Chemistry                                    

   BioCyc                             320146     305741      0.59      20      Enzyme and pathway databases                 

   BioGrid                             38820      38477      0.07      47      Protein-protein interaction databases        

   BRENDA                               4326       4315      0.01      93      Enzyme and pathway databases                 

   CAZy                                 7669       6904      0.01      76      Protein family/group databases               

   CGD                                   899        877     <0.01     110      Organism-specific databases                  

   ChEMBL                               5587       5587      0.01      84      Chemistry                                    

   ChiTaRS                             12553      12548      0.02      72      Other                                        

   CleanEx                             30069      29429      0.06      51      Gene expression databases                    

   COMPLUYEAST-2DPAGE                     99         98     <0.01     127      2D gel databases                             

   ConoServer                            948        866     <0.01     108      Organism-specific databases                  

   CTD                                 71788      71065      0.13      37      Organism-specific databases                  

   CYGD                                 5596       5593      0.01      82      Organism-specific databases                  

   dictyBase                            4203       4087      0.01      95      Organism-specific databases                  

   DIP                                 15196      15125      0.03      68      Protein-protein interaction databases        

   DisProt                               605        602     <0.01     118      3D structure databases                       

   DMDM                                16432      16432      0.03      66      Polymorphism databases                       

   DNASU                               18732      18661      0.03      61      Protocols and materials databases            

   DOSAC-COBS-2DPAGE                     149        147     <0.01     126      2D gel databases                             

   DrugBank                             5305       1617      0.01      85      Chemistry                                    

   EchoBASE                             4161       4161      0.01      96      Organism-specific databases                  

   EcoGene                              4292       4290      0.01      94      Organism-specific databases                  

   eggNOG                             430274     430274      0.79      10      Phylogenomic databases                       

   EMBL                               952362     534220      1.75       3      Sequence databases                           

   Ensembl                             85870      49101      0.16      34      Genome annotation databases                  

   EnsemblBacteria                    345031     326402      0.63      18      Genome annotation databases                  

   EnsemblFungi                        18903      18586      0.03      60      Genome annotation databases                  

   EnsemblMetazoa                      12774       9379      0.02      71      Genome annotation databases                  

   EnsemblPlants                       17630      15143      0.03      64      Genome annotation databases                  

   EnsemblProtists                      4595       4462      0.01      92      Genome annotation databases                  

   euHCVdb                                55         44     <0.01     128      Organism-specific databases                  

   EuPathDB                              800        800     <0.01     112      Organism-specific databases                  

   EvolutionaryTrace                   16418      16417      0.03      67      Other                                        

   FlyBase                              5927       5553      0.01      80      Organism-specific databases                  

   Gene3D                             416973     308758      0.76      11      Family and domain databases                  

   GeneCards                           20897      19798      0.04      57      Organism-specific databases                  

   GeneFarm                             3267       3256      0.01      97      Organism-specific databases                  

   GeneID                             499706     468406      0.92       6      Genome annotation databases                  

   GeneTree                            35297      35283      0.06      48      Phylogenomic databases                       

   Genevestigator                      68022      68022      0.12      40      Gene expression databases                    

   GeneWiki                            10372      10285      0.02      74      Other                                        

   GenoList                             7071       7059      0.01      77      Organism-specific databases                  

   GenomeRNAi                          21389      21389      0.04      56      Other                                        

   GO                                2501373     512476      4.59       1      Ontologies                                   

   Gramene                              6196       6196      0.01      79      Organism-specific databases                  

   GuidetoPHARMACOLOGY                  1797       1797     <0.01     102      Chemistry                                    

   H-InvDB                              5590       4770      0.01      83      Organism-specific databases                  

   HAMAP                              323443     320537      0.59      19      Family and domain databases                  

   HGNC                                19916      19750      0.04      59      Organism-specific databases                  

   HOGENOM                            384996     384996      0.71      16      Phylogenomic databases                       

   HOVERGEN                            75659      75659      0.14      36      Phylogenomic databases                       

   HPA                                 22362      15990      0.04      54      Organism-specific databases                  

   InParanoid                          70729      70729      0.13      39      Phylogenomic databases                       

   IntAct                              41787      41787      0.08      45      Protein-protein interaction databases        

   InterPro                          1835939     523065      3.37       2      Family and domain databases                  

   KEGG                               468957     442666      0.86       7      Genome annotation databases                  

   KO                                 372558     372088      0.68      17      Phylogenomic databases                       

   LegioList                             765        763     <0.01     114      Organism-specific databases                  

   Leproma                               671        668     <0.01     116      Organism-specific databases                  

   MaizeGDB                              503        498     <0.01     121      Organism-specific databases                  

   MaxQB                               27070      27070      0.05      53      Proteomic databases                          

   MEROPS                              11908      11908      0.02      73      Protein family/group databases               

   MGI                                 16582      16538      0.03      65      Organism-specific databases                  

   MIM                                 18617      13915      0.03      62      Organism-specific databases                  

   MINT                                31568      31568      0.06      50      Protein-protein interaction databases        

   mycoCLAP                              281        275     <0.01     124      Protein family/group databases               

   NextBio                             71171      71171      0.13      38      Other                                        

   neXtProt                            20108      20107      0.04      58      Organism-specific databases                  

   OGP                                   377        377     <0.01     123      2D gel databases                             

   OMA                                402546     402546      0.74      12      Phylogenomic databases                       

   Orphanet                             5918       3119      0.01      81      Organism-specific databases                  

   OrthoDB                            388921     388921      0.71      15      Phylogenomic databases                       

   PANTHER                            191984     180385      0.35      24      Family and domain databases                  

   PATRIC                             307445     307417      0.56      21      Genome annotation databases                  

   PaxDb                               66598      66598      0.12      41      Proteomic databases                          

   PDB                                106747      20744      0.20      31      3D structure databases                       

   PDBsum                             106747      20744      0.20      30      3D structure databases                       

   PeptideAtlas                         5162       5162      0.01      87      Proteomic databases                          

   PeroxiBase                            769        753     <0.01     113      Protein family/group databases               

   Pfam                               732299     504296      1.34       4      Family and domain databases                  

   PharmGKB                            18388      18360      0.03      63      Organism-specific databases                  

   PhosphoSite                         33571      33571      0.06      49      PTM databases                                

   PhosSite                              604        595     <0.01     119      PTM databases                                

   PhylomeDB                           76019      76019      0.14      35      Phylogenomic databases                       

   PIR                                121293     111106      0.22      29      Sequence databases                           

   PIRSF                              102071     101109      0.19      32      Family and domain databases                  

   PMAP-CutDB                           1461       1461     <0.01     104      Other                                        

   PomBase                              5138       5102      0.01      88      Organism-specific databases                  

   PptaseDB                               37         37     <0.01     129      Protein family/group databases               

   PRIDE                              122246     122246      0.22      28      Proteomic databases                          

   PRINTS                             137074     120774      0.25      26      Family and domain databases                  

   PRO                                 57926      57926      0.11      43      Other                                        

   ProDom                              29413      29234      0.05      52      Family and domain databases                  

   ProMEX                                870        870     <0.01     111      Proteomic databases                          

   PROSITE                            437842     285383      0.80       8      Family and domain databases                  

   ProteinModelPortal                 435091     435091      0.80       9      3D structure databases                       

   PseudoCAP                            1278       1269     <0.01     105      Organism-specific databases                  

   Reactome                            14324       8359      0.03      69      Enzyme and pathway databases                 

   REBASE                                402        402     <0.01     122      Protein family/group databases               

   RefSeq                             562558     477491      1.03       5      Sequence databases                           

   REPRODUCTION-2DPAGE                  1258       1037     <0.01     106      2D gel databases                             

   RGD                                  7818       7814      0.01      75      Organism-specific databases                  

   SABIO-RK                             2853       2853      0.01      99      Enzyme and pathway databases                 

   SGD                                  6640       6635      0.01      78      Organism-specific databases                  

   SignaLink                            2962       2959      0.01      98      Enzyme and pathway databases                 

   SMART                              169249     126757      0.31      25      Family and domain databases                  

   SMR                                222162     222162      0.41      23      3D structure databases                       

   STRING                             402205     402205      0.74      13      Protein-protein interaction databases        

   SUPFAM                             390160     300085      0.72      14      Family and domain databases                  

   SWISS-2DPAGE                         1182       1181     <0.01     107      2D gel databases                             

   TAIR                                12854      12798      0.02      70      Organism-specific databases                  

   TCDB                                 5209       5179      0.01      86      Protein family/group databases               

   TIGRFAMs                           291208     271030      0.53      22      Family and domain databases                  

   TreeFam                             44709      44704      0.08      44      Phylogenomic databases                       

   TubercuList                          2058       2022     <0.01     101      Organism-specific databases                  

   UCD-2DPAGE                            509        500     <0.01     120      2D gel databases                             

   UCSC                                58397      44706      0.11      42      Genome annotation databases                  

   UniCarbKB                             272        272     <0.01     125      PTM databases                                

   UniGene                            101901      92039      0.19      33      Sequence databases                           

   UniPathway                         133025     121030      0.24      27      Enzyme and pathway databases                 

   VectorBase                            607        589     <0.01     117      Genome annotation databases                  

   World-2DPAGE                          921        910     <0.01     109      2D gel databases                             

   WormBase                             5021       3997      0.01      89      Organism-specific databases                  

   Xenbase                              4759       4753      0.01      91      Organism-specific databases                  

   ZFIN                                 2761       2761      0.01     100      Organism-specific databases                  



Total number of cross-referenced databases: 129



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) 6.57

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

   Asn (N) 4.05   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) 5.95   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



4465 entries are encoded on a mitochondrion, and 3763 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: 75672