UniProtKB/Swiss-Prot protein knowledgebase release 2016_08 statistics





1.  INTRODUCTION



Release 2016_08 of 07-Sep-16 of UniProtKB/Swiss-Prot contains 551987 sequence entries,

comprising 197275398 amino acids abstracted from 246580 references. 



319 sequences have been added since release 2016_07, the sequence data of

49 existing entries has been updated and the annotations of

453172 entries have been revised.



Number of fragments: 9150

Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 39260





Protein existence (PE):           entries     %



1: Evidence at protein level        93176   16.9%

2: Evidence at transcript level     57818   10.5%

3: Inferred from homology          387730   70.2%

4: Predicted                        11318    2.1%

5: Uncertain                         1945    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: 13337



   The first twenty species represent 117908 sequences:  21.4 % of the total

   number of entries.





   2.1 Table of the frequency of occurrence of species



        Species represented 1x: 5537

                            2x: 1913

                            3x: 1046

                            4x:  667

                            5x:  491

                            6x:  400

                            7x:  291

                            8x:  238

                            9x:  216

                           10x:  128

                       11- 20x:  715

                       21- 50x:  431

                       51-100x:  216

                         >100x: 1048





   2.2  Table of the most represented species



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

  Number  Frequency  Species

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

       1      20177  Homo sapiens (Human)

       2      16811  Mus musculus (Mouse)

       3      14791  Arabidopsis thaliana (Mouse-ear cress)

       4       7964  Rattus norvegicus (Rat)

       5       6721  Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

       6       5998  Bos taurus (Bovine)

       7       5135  Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)

       8       4434  Escherichia coli (strain K12)

       9       4185  Bacillus subtilis (strain 168)

      10       4132  Dictyostelium discoideum (Slime mold)

      11       3743  Caenorhabditis elegans

      12       3568  Oryza sativa subsp. japonica (Rice)

      13       3402  Xenopus laevis (African clawed frog)

      14       3341  Drosophila melanogaster (Fruit fly)

      15       2972  Danio rerio (Zebrafish) (Brachydanio rerio)

      16       2279  Gallus gallus (Chicken)

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

      18       2113  Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)

      19       2030  Escherichia coli O157:H7

      20       1893  Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)

      21       1790  Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

      22       1787  Methanocaldococcus jannaschii  

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

      24       1703  Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)

      25       1689  Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

      26       1680  Shigella flexneri

      27       1416  Sus scrofa (Pig)

      28       1347  Salmonella typhi

      29       1301  Pseudomonas aeruginosa 

      30       1244  Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97)

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

      32       1059  Synechocystis sp. (strain PCC 6803 / Kazusa)

      33       1027  Archaeoglobus fulgidus 

      34       1022  Yersinia pestis

      35        988  Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)

      36        970  Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)

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

      38        929  Staphylococcus aureus (strain Mu50 / ATCC 700699)

      39        927  Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056)  

      40        926  Staphylococcus aureus (strain N315)

      41        910  Kluyveromyces lactis   

      42        909  Acanthamoeba polyphaga mimivirus (APMV)

      43        899  Staphylococcus aureus (strain COL)

      44        895  Staphylococcus aureus (strain MW2)

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

      46        891  Oryctolagus cuniculus (Rabbit)

      47        889  Staphylococcus aureus (strain MSSA476)

      48        888  Staphylococcus aureus (strain MRSA252)

      49        882  Salmonella choleraesuis (strain SC-B67)

      50        878  Shigella sonnei (strain Ss046)

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

      52        863  Yersinia pseudotuberculosis serotype I (strain IP32953)

      53        862  Candida glabrata   

      54        851  Neurospora crassa 

      55        841  Escherichia coli O9:H4 (strain HS)

      56        839  Emericella nidulans  

      57        834  Escherichia coli O139:H28 (strain E24377A / ETEC)

      58        829  Shigella boydii serotype 4 (strain Sb227)

      59        825  Escherichia coli (strain UTI89 / UPEC)

      60        822  Shigella dysenteriae serotype 1 (strain Sd197)

      61        819  Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks)

      62        812  Canis lupus familiaris (Dog) (Canis familiaris)

      63        792  Oryza sativa subsp. indica (Rice)

      64        791  Escherichia coli (strain SMS-3-5 / SECEC)

      65        790  Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672) 

      66        789  Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)

      67        784  Aquifex aeolicus (strain VF5)

      68        776  Pasteurella multocida (strain Pm70)

      69        774  Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)

      70        771  Escherichia coli (strain K12 / DH10B)

      71        771  Escherichia coli O127:H6 (strain E2348/69 / EPEC)

      72        765  Escherichia coli (strain K12 / MC4100 / BW2952)

      73        764  Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC)

      74        763  Zea mays (Maize)

      75        762  Escherichia coli (strain 55989 / EAEC)

      76        761  Escherichia coli O8 (strain IAI1)

      77        760  Shigella flexneri serotype 5b (strain 8401)

      78        759  Staphylococcus epidermidis (strain ATCC 35984 / RP62A)

      79        758  Staphylococcus epidermidis (strain ATCC 12228)

      80        756  Escherichia coli (strain SE11)

      81        756  Escherichia coli O45:K1 (strain S88 / ExPEC)

      82        753  Escherichia coli O7:K1 (strain IAI39 / ExPEC)

      83        748  Escherichia coli O157:H7 (strain EC4115 / EHEC)

      84        745  Photorhabdus luminescens subsp. laumondii (strain DSM 15139 / CIP 105565 / TT01)

      85        743  Staphylococcus aureus (strain NCTC 8325)

      86        741  Bacillus anthracis

      87        741  Bacillus halodurans 

      88        737  Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 8081)

      89        733  Vibrio vulnificus (strain CMCP6)

      90        733  Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) 

      91        731  Escherichia coli O81 (strain ED1a)

      92        722  Salmonella enteritidis PT4 (strain P125109)

      93        718  Vibrio vulnificus (strain YJ016)

      94        716  Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7)

      95        715  Yersinia pestis bv. Antiqua (strain Nepal516)

      96        715  Enterobacter sp. (strain 638)

      97        714  Escherichia coli O1:K1 / APEC

      98        714  Salmonella paratyphi A (strain AKU_12601)

      99        713  Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)

     100        713  Salmonella agona (strain SL483)

     101        713  Salmonella newport (strain SL254)

     102        713  Yersinia pseudotuberculosis serotype O:1b (strain IP 31758)

     103        712  Salmonella schwarzengrund (strain CVM19633)

     104        711  Yersinia pestis bv. Antiqua (strain Antiqua)

     105        710  Salmonella heidelberg (strain SL476)

     106        705  Pseudomonas putida (strain KT2440)

     107        702  Salmonella dublin (strain CT_02021853)

     108        698  Klebsiella pneumoniae (strain 342)

     109        698  Shigella boydii serotype 18 (strain CDC 3083-94 / BS512)

     110        695  Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73)

     111        693  Pan troglodytes (Chimpanzee)

     112        692  Nostoc sp. (strain PCC 7120 / SAG 25.82 / UTEX 2576)

     113        687  Mycoplasma pneumoniae (strain ATCC 29342 / M129)

     114        684  Salmonella gallinarum (strain 287/91 / NCTC 13346)

     115        678  Citrobacter koseri (strain ATCC BAA-895 / CDC 4225-83 / SGSC4696)

     116        678  Pseudomonas syringae pv. tomato (strain DC3000)

     117        670  Serratia proteamaculans (strain 568)

     118        670  Escherichia coli

     119        669  Mycobacterium leprae (strain TN)

     120        667  Yersinia pestis (strain Pestoides F)

     121        666  Staphylococcus aureus (strain USA300)

     122        665  Bacillus cereus 

     123        661  Bradyrhizobium diazoefficiens 

     124        658  Sinorhizobium fredii (strain NBRC 101917 / NGR234)

     125        653  Debaryomyces hansenii   

     126        650  Yarrowia lipolytica (strain CLIB 122 / E 150) (Yeast) (Candida lipolytica)

     127        645  Shewanella oneidensis (strain MR-1)

     128        645  Agrobacterium fabrum (strain C58 / ATCC 33970) (Agrobacterium tumefaciens 

     129        643  Staphylococcus aureus (strain bovine RF122 / ET3-1)

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

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

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

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

     134        620  Methanothermobacter thermautotrophicus  

     135        620  Treponema pallidum (strain Nichols)

     136        613  Staphylococcus haemolyticus (strain JCSC1435)

     137        610  Rhizobium loti (strain MAFF303099) (Mesorhizobium loti)

     138        608  Xanthomonas campestris pv. campestris 

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

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

     141        602  Photobacterium profundum (strain SS9)

     142        602  Staphylococcus saprophyticus subsp. saprophyticus 

     143        601  Salmonella paratyphi C (strain RKS4594)

     144        600  Yersinia pestis bv. Antiqua (strain Angola)

     145        593  Bacillus cereus (strain ATCC 10987 / NRS 248)

     146        593  Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)

     147        592  Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)

     148        591  Pectobacterium carotovorum subsp. carotovorum (strain PC1)

     149        589  Pseudomonas aeruginosa (strain UCBPP-PA14)

     150        586  Rickettsia prowazekii (strain Madrid E)

     151        579  Neisseria meningitidis serogroup B (strain MC58)

     152        577  Caenorhabditis briggsae

     153        576  Brucella suis biovar 1 (strain 1330)

     154        573  Brucella melitensis biotype 1 (strain 16M / ATCC 23456 / NCTC 10094)

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

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

     157        568  Caulobacter crescentus (strain ATCC 19089 / CB15)

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

     159        567  Vibrio fischeri (strain ATCC 700601 / ES114)

     160        567  Pseudomonas syringae pv. syringae (strain B728a)

     161        564  Bacillus licheniformis 

     162        562  Bacillus cereus (strain ZK / E33L)

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

     164        559  Clostridium acetobutylicum 

     165        556  Xanthomonas axonopodis pv. citri (strain 306)

     166        553  Oceanobacillus iheyensis 

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

     168        552  Pseudomonas fluorescens (strain Pf0-1)

     169        548  Pseudomonas fluorescens (strain ATCC BAA-477 / NRRL B-23932 / Pf-5)

     170        545  Pseudomonas savastanoi pv. phaseolicola  (Pseudomonas syringae pv. phaseolicola 

     171        542  Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)

     172        536  Lactococcus lactis subsp. lactis (strain IL1403) (Streptococcus lactis)

     173        531  Erwinia tasmaniensis (strain DSM 17950 / CIP 109463 / Et1/99)

     174        529  Sodalis glossinidius (strain morsitans)

     175        529  Listeria monocytogenes serotype 4b (strain F2365)

     176        526  Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)

     177        525  Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50) 

     178        522  Xylella fastidiosa (strain 9a5c)

     179        518  Corynebacterium glutamicum 

     180        517  Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)

     181        517  Chromobacterium violaceum 

     182        515  Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251)

     183        515  Xylella fastidiosa (strain Temecula1 / ATCC 700964)

     184        512  Deinococcus radiodurans 

     185        512  Pseudomonas aeruginosa (strain PA7)

     186        510  Haemophilus ducreyi (strain 35000HP / ATCC 700724)

     187        509  Geobacillus kaustophilus (strain HTA426)

     188        508  Staphylococcus aureus (strain Newman)

     189        508  Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253)

     190        507  Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp)

     191        506  Streptomyces avermitilis 

     192        501  Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)

     193        500  Pseudomonas entomophila (strain L48)

     194        499  Brucella abortus biovar 1 (strain 9-941)

     195        497  Rickettsia conorii (strain ATCC VR-613 / Malish 7)

     196        496  Bacillus clausii (strain KSM-K16)

     197        495  Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)

     198        495  Burkholderia pseudomallei (strain K96243)

     199        495  Haemophilus influenzae (strain 86-028NP)

     200        494  Proteus mirabilis (strain HI4320)

     201        494  Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 / JCM 12185 / C2A)

     202        492  Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1)

     203        492  Bacillus velezensis (strain DSM 23117 / BGSC 10A6 / FZB42) 

     204        492  Xanthomonas campestris pv. campestris (strain 8004)

     205        491  Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1) 

     206        490  Vibrio campbellii (strain ATCC BAA-1116 / BB120)

     207        490  Aspergillus oryzae (strain ATCC 42149 / RIB 40) (Yellow koji mold)

     208        487  Methanosarcina mazei  

     209        487  Shewanella sp. (strain MR-7)

     210        486  Mannheimia succiniciproducens (strain MBEL55E)

     211        484  Pseudomonas aeruginosa (strain LESB58)

     212        484  Staphylococcus aureus (strain Mu3 / ATCC 700698)

     213        484  Thermosynechococcus elongatus (strain BP-1)

     214        484  Shewanella sp. (strain MR-4)

     215        483  Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195)

     216        482  Pyrococcus horikoshii 

     217        482  Brucella abortus (strain 2308)

     218        479  Synechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)

     219        478  Streptococcus pneumoniae (strain ATCC BAA-255 / R6)

     220        478  Pseudomonas putida (strain ATCC 700007 / DSM 6899 / BCRC 17059 / F1)

     221        477  Pyrococcus abyssi (strain GE5 / Orsay)

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

     223        469  Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)

     224        468  Clostridium perfringens (strain 13 / Type A)

     225        467  Nicotiana tabacum (Common tobacco)

     226        467  Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337) 

     227        467  Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)

     228        466  Rhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)

     229        466  Xanthomonas campestris pv. vesicatoria (strain 85-10)

     230        466  Shewanella frigidimarina (strain NCIMB 400)

     231        466  Pseudomonas putida (strain GB-1)

     232        466  Shewanella sp. (strain ANA-3)

     233        464  Aeromonas hydrophila subsp. hydrophila 

     234        464  Anabaena variabilis (strain ATCC 29413 / PCC 7937)

     235        462  Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)

     236        462  Burkholderia mallei (strain ATCC 23344)

     237        462  Enterococcus faecalis (strain ATCC 700802 / V583)

     238        461  Campylobacter jejuni subsp. jejuni serotype O:2 

     239        459  Cupriavidus pinatubonensis (strain JMP 134 / LMG 1197) (Ralstonia eutropha 

     240        457  Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath)

     241        457  Rickettsia felis (strain ATCC VR-1525 / URRWXCal2) (Rickettsia azadi)

     242        455  Staphylococcus aureus (strain JH1)

     243        455  Ovis aries (Sheep)

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

     245        453  Pseudomonas putida (strain W619)

     246        452  Aeromonas salmonicida (strain A449)

     247        452  Shewanella baltica (strain OS185)

     248        451  Streptococcus mutans serotype c (strain ATCC 700610 / UA159)

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

     250        450  Dechloromonas aromatica (strain RCB)





   

   2.3  Taxonomic distribution of the sequences



   



   Kingdom        sequences (% of the database)

    Archaea           19397 (  4%)

    Bacteria         332686 ( 60%)

    Eukaryota        183274 ( 33%)

    Viruses           16630 (  3%)





   Within Eukaryota:



   



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

     Human                  20178 ( 11%)           (  4%)

     Other Mammalia         46333 ( 25%)           (  8%)

     Other Vertebrata       17927 ( 10%)           (  3%)

     Viridiplantae          37853 ( 21%)           (  7%)

     Fungi                  32213 ( 18%)           (  6%)

     Insecta                 8908 (  5%)           (  2%)

     Nematoda                4631 (  3%)           (  1%)

     Other                  15231 (  8%)           (  3%)







3.  SEQUENCE SIZE



   Repartition of the sequences by size (excluding fragments)



               From   To  Number             From   To   Number

                  1-  50    9157             1001-1100     3898

                 51- 100   42118             1101-1200     2739

                101- 150   58510             1201-1300     2106

                151- 200   58489             1301-1400     1962

                201- 250   57331             1401-1500     1570

                251- 300   50986             1501-1600      765

                301- 350   51272             1601-1700      591

                351- 400   44432             1701-1800      509

                401- 450   36465             1801-1900      448

                451- 500   29367             1901-2000      365

                501- 550   21031             2001-2100      226

                551- 600   15046             2101-2200      311

                601- 650   12604             2201-2300      303

                651- 700    9092             2301-2400      191

                701- 750    7536             2401-2500      149

                751- 800    5412             >2500         1167

                801- 850    4692

                851- 900    5160

                901- 950    3985

                951-1000    2852



   





   The average sequence length in UniProtKB/Swiss-Prot is 357 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: 2601





   4.1 Table of the frequency of journal citations



        Journals cited 1x:  841

                       2x:  352

                       3x:  155

                       4x:  133

                       5x:  107

                       6x:   87

                       7x:   56

                       8x:   55

                       9x:   31

                      10x:   35

                  11- 20x:  209

                  21- 50x:  210

                  51-100x:  113

                    >100x:  217





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



   Nb    Citations   Journal name

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

    1        23326   Journal of Biological Chemistry

    2        10668   Proceedings of the National Academy of Sciences of the U.S.A.

    3         6311   Journal of Bacteriology

    4         5385   Biochemical and Biophysical Research Communications

    5         5019   Biochemistry

    6         4858   Nucleic Acids Research

    7         4751   Gene

    8         4662   FEBS Letters

    9         4524   The EMBO Journal

   10         4201   Molecular and Cellular Biology

   11         4187   Nature

   12         4046   Journal of Molecular Biology

   13         3479   Biochimica et Biophysica Acta

   14         3368   Cell

   15         3337   European Journal of Biochemistry

   16         2929   Journal of Virology

   17         2805   Science

   18         2730   Biochemical Journal

   19         2525   Genomics

   20         2361   Molecular Microbiology

   21         2298   Plant Physiology

   22         2067   Journal of Cell Biology

   23         1921   The American Journal of Human Genetics

   24         1790   Plant Molecular Biology

   25         1766   The Plant Cell

   26         1759   Genes and Development

   27         1679   Human Molecular Genetics

   28         1666   Nature Genetics

   29         1657   Virology

   30         1620   The Plant Journal

   31         1546   Development

   32         1533   Molecular Biology of the Cell

   33         1503   Oncogene

   34         1464   Human Mutation

   35         1400   PLoS ONE

   36         1381   Molecular and General Genetics

   37         1378   Molecular Cell

   38         1318   Journal of Immunology

   39         1304   Journal of Biochemistry

   40         1241   Genetics

   41         1233   Structure

   42         1122   Journal of Cell Science

   43         1094   Blood

   44         1069   Journal of General Virology

   45         1064   Infection and Immunity

   46         1011   Microbiology

   47          995   Archives of Biochemistry and Biophysics

   48          947   Developmental Biology

   49          946   Current Biology

   50          855   Cancer Research

   51          826   Yeast

   52          810   Journal of Neuroscience

   53          808   Acta Crystallographica, Section D

   54          806   FEMS Microbiology Letters

   55          779   Applied and Environmental Microbiology

   56          732   Protein Science

   57          726   Toxicon

   58          678   Journal of Clinical Investigation

   59          677   Neuron

   60          664   Human Genetics

   61          638   Nature Structural Biology

   62          635   Mechanisms of Development

   63          631   American Journal of Physiology

   64          603   Plant and Cell Physiology

   65          589   The Journal of Experimental Medicine

   66          571   Proteins

   67          562   Current Genetics

   68          544   Journal of Medical Genetics

   69          523   Molecular Endocrinology

   70          518   Nature Cell Biology

   71          515   Bioscience, Biotechnology, and Biochemistry

   72          509   Journal of Neurochemistry

   73          499   The Journal of Clinical Endocrinology and Metabolism

   74          488   Mammalian Genome

   75          478   Endocrinology

   76          463   Immunogenetics

   77          445   Molecular and Biochemical Parasitology

   78          441   Nature Structural and Molecular Biology

   79          437   The FEBS Journal

   80          431   PLoS Genetics

   81          429   Experimental Cell Research

   82          429   Developmental Cell

   83          421   Antimicrobial Agents and Chemotherapy

   84          406   Journal of Molecular Evolution

   85          404   Eukaryotic Cell

   86          389   Peptides

   87          386   Molecular Biology and Evolution

   88          383   DNA and Cell Biology

   89          378   RNA

   90          375   Planta

   91          370   DNA Sequence

   92          349   Journal of Investigative Dermatology

   93          349   Molecular Pharmacology

   94          341   Neurology

   95          338   Comparative Biochemistry and Physiology

   96          334   Brain Research. Molecular Brain Research

   97          325   Tissue Antigens

   98          324   EMBO Reports

   99          319   Biology of Reproduction

  100          319   Journal of the American Chemical Society

  101          306   The FASEB Journal

  102          302   Molecular Plant-Microbe Interactions

  103          297   Immunity

  104          296   Genes to Cells

  105          295   The New England Journal of Medicine

  106          294   Biological Chemistry Hoppe-Seyler

  107          294   Biochimie

  108          294   Developmental Dynamics

  109          293   Acta Crystallographica, Section F

  110          292   European Journal of Human Genetics

  111          288   Virus Research

  112          286   Journal of Experimental Botany

  113          282   Cytogenetics and Cell Genetics

  114          281   Genome Research

  115          267   Journal of General Microbiology

  116          266   American Journal of Medical Genetics. Part A

  117          258   Annals of Neurology

  118          252   European Journal of Immunology

  119          252   PLoS Pathogens

  120          249   Clinical Genetics

  121          246   BMC Genomics

  122          242   Investigative Ophthalmology and Visual Science

  123          240   Nature Immunology

  124          233   Archives of Microbiology

  125          233   Journal of Human Genetics

  126          224   DNA Research

  127          220   Applied Microbiology and Biotechnology

  128          220   Journal of Medicinal Chemistry

  129          218   Hoppe-Seyler's Zeitschrift fur Physiologische Chemie

  130          217   Journal of Cellular Biochemistry

  131          211   Glycobiology

  132          203   Traffic

  133          203   Molecular Genetics and Metabolism

  134          202   Circulation Research

  135          202   PLoS Biology

  136          200   Molecular Immunology

  137          200   Cell Cycle

  138          200   Archives of Virology

  139          199   Molecular and Cellular Endocrinology

  140          199   Diabetes

  141          194   Journal of Lipid Research

  142          190   Protein Expression and Purification

  143          186   Phytochemistry

  144          181   Nature Communications

  145          179   Insect Biochemistry and Molecular Biology

  146          177   Molecular Genetics and Genomics

  147          176   Nature Medicine

  148          174   International Journal of Cancer

  149          174   Molecular and Cellular Neuroscience

  150          172   Molecular Phylogenetics and Evolution





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)                      1158474                 2.10                                         

   Journal                            962684     441436      1.74       1                                 

   Submitted to EMBL/GenBank/DDBJ     185498     163377      0.34       2                                 

   Submitted to other databases         7180       6660      0.01       3                                 

   Book citation                        1492       1478     <0.01       4                                 

   Plant Gene Register                   600        588     <0.01       5                                 

   Thesis                                428        425     <0.01       6                                 

   Unpublished observations              389        385     <0.01       7                                 

   Patent                                197        193     <0.01       8                                 

   Worm Breeder's Gazette                  6          6     <0.01       9                                 



Total number of distinct authors cited in UniProtKB/Swiss-Prot: 379382



                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Comments (CC)                        2591098                 4.69                                         

   ALLERGEN                              708        708     <0.01      25                                 

   ALTERNATIVE PRODUCTS                24607      24607      0.04      13                                 

   BIOPHYSICOCHEMICAL PROPERTIES        7122       7122      0.01      21                                 

   BIOTECHNOLOGY                         688        686     <0.01      26                                 

   CATALYTIC ACTIVITY                 257971     231568      0.47       5                                 

   CAUTION                             10398      10192      0.02      19                                 

   COFACTOR                           119550     109602      0.22       7                                 

   DEVELOPMENTAL STAGE                 11063      11063      0.02      17                                 

   DISEASE                              6341       4231      0.01      22                                 

   DISRUPTION PHENOTYPE                10638      10638      0.02      18                                 

   DOMAIN                              44443      38483      0.08       9                                 

   ENZYME REGULATION                   13544      13543      0.02      16                                 

   FUNCTION                           448248     429706      0.81       2                                 

   INDUCTION                           18437      18436      0.03      14                                 

   INTERACTION                         15287      15287      0.03      15                                 

   MASS SPECTROMETRY                    6124       4624      0.01      23                                 

   MISCELLANEOUS                       35866      33042      0.06      12                                 

   PATHWAY                            135702     122958      0.25       6                                 

   PHARMACEUTICAL                         99         99     <0.01      29                                 

   POLYMORPHISM                         1053        997     <0.01      24                                 

   PTM                                 51204      38999      0.09       8                                 

   RNA EDITING                           627        627     <0.01      27                                 

   SEQUENCE CAUTION                    43317      43317      0.08      10                                 

   SIMILARITY                         670367     527110      1.21       1                                 

   SUBCELLULAR LOCATION               340712     333957      0.62       3                                 

   SUBUNIT                            265371     265226      0.48       4                                 

   TISSUE SPECIFICITY                  42967      42967      0.08      11                                 

   TOXIC DOSE                            623        577     <0.01      28                                 

   WEB RESOURCE                         8021       6801      0.01      20                                 



Total number of comment topics: 29





                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Features (FT)                        4218660                 7.64                                         

   ACT_SITE                           157586      96307      0.29      10                                 

   BINDING                            363928      95667      0.66       3                                 

   CA_BIND                              3992       1679      0.01      36                                 

   CARBOHYD                           112497      28831      0.20      15                                 

   CHAIN                              559577     545548      1.01       1                                 

   COILED                              21576      14869      0.04      26                                 

   COMPBIAS                            57754      30934      0.10      19                                 

   CONFLICT                           132383      46410      0.24      13                                 

   CROSSLNK                            12979       6386      0.02      29                                 

   DISULFID                           118377      32298      0.21      14                                 

   DNA_BIND                            11308      10279      0.02      32                                 

   DOMAIN                             181423     109992      0.33       8                                 

   HELIX                              222733      20904      0.40       7                                 

   INIT_MET                            18337      18337      0.03      27                                 

   INTRAMEM                             2430       1061     <0.01      37                                 

   LIPID                               12636       8108      0.02      30                                 

   METAL                              362525      90078      0.66       4                                 

   MOD_RES                            234853      70078      0.43       5                                 

   MOTIF                               40173      25974      0.07      24                                 

   MUTAGEN                             58217      13171      0.11      18                                 

   NON_CONS                             2238        777     <0.01      38                                 

   NON_STD                               359        284     <0.01      39                                 

   NON_TER                             12267       9384      0.02      31                                 

   NP_BIND                            143859      81363      0.26      11                                 

   PEPTIDE                             10749       7302      0.02      33                                 

   PROPEP                              13507      11589      0.02      28                                 

   REGION                             180403      85411      0.33       9                                 

   REPEAT                             101018      14382      0.18      16                                 

   SIGNAL                              40453      40443      0.07      23                                 

   SITE                                52698      29411      0.10      21                                 

   STRAND                             231877      19711      0.42       6                                 

   TOPO_DOM                           136452      28113      0.25      12                                 

   TRANSIT                              9122       9009      0.02      34                                 

   TRANSMEM                           366082      75956      0.66       2                                 

   TURN                                53551      16948      0.10      20                                 

   UNSURE                               4330        757      0.01      35                                 

   VAR_SEQ                             51120      21522      0.09      22                                 

   VARIANT                             93316      17059      0.17      17                                 

   ZN_FING                             29975      13205      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)               17859431                32.35                                                           

   Allergome                            1703       1114     <0.01     112      Protein family/group databases               

   ArachnoServer                        1146       1136     <0.01     118      Organism-specific databases                  

   Bgee                                54784      54784      0.10      46      Gene expression databases                    

   BindingDB                            4610       4610      0.01      97      Chemistry                                    

   BioCyc                             325667     308357      0.59      19      Enzyme and pathway databases                 

   BioGrid                             48383      47931      0.09      48      Protein-protein interaction databases        

   BioMuta                             17245      17241      0.03      73      Polymorphism and mutation databases          

   BRENDA                              12771      11999      0.02      82      Enzyme and pathway databases                 

   CAZy                                 9389       8467      0.02      85      Protein family/group databases               

   CCDS                                46628      33623      0.08      49      Sequence databases                           

   CDD                                 76918      76071      0.14      41      Family and domain databases                  

   CGD                                  1710       1693     <0.01     111      Organism-specific databases                  

   ChEMBL                               6391       6391      0.01      88      Chemistry                                    

   ChiTaRS                             16477      16467      0.03      77      Other                                        

   CleanEx                             30041      29401      0.05      58      Gene expression databases                    

   CollecTF                              133        133     <0.01     137      Gene expression databases                    

   COMPLUYEAST-2DPAGE                     99         98     <0.01     138      2D gel databases                             

   ConoServer                            949        866     <0.01     120      Organism-specific databases                  

   CTD                                 73703      72954      0.13      43      Organism-specific databases                  

   DEPOD                                 239        239     <0.01     135      PTM databases                                

   dictyBase                            4208       4093      0.01     100      Organism-specific databases                  

   DIP                                 16922      16866      0.03      74      Protein-protein interaction databases        

   DisProt                               605        602     <0.01     126      3D structure databases                       

   DMDM                                16373      16352      0.03      78      Polymorphism and mutation databases          

   DNASU                               18885      18813      0.03      69      Protocols and materials databases            

   DOSAC-COBS-2DPAGE                     146        146     <0.01     136      2D gel databases                             

   DrugBank                            11784       1909      0.02      83      Chemistry                                    

   EchoBASE                             4161       4161      0.01     101      Organism-specific databases                  

   EcoGene                              4294       4292      0.01      99      Organism-specific databases                  

   eggNOG                             657810     328322      1.19       5      Phylogenomic databases                       

   EMBL                               979419     540637      1.77       3      Sequence databases                           

   Ensembl                             84592      48504      0.15      40      Genome annotation databases                  

   EnsemblBacteria                    354865     335851      0.64      16      Genome annotation databases                  

   EnsemblFungi                        30365      27922      0.06      57      Genome annotation databases                  

   EnsemblMetazoa                      13285       9889      0.02      80      Genome annotation databases                  

   EnsemblPlants                       22257      18953      0.04      62      Genome annotation databases                  

   EnsemblProtists                      4882       4719      0.01      96      Genome annotation databases                  

   EPD                                 19575      19575      0.04      68      Proteomic databases                          

   ESTHER                               2443       2441     <0.01     108      Protein family/group databases               

   euHCVdb                                55         44     <0.01     140      Organism-specific databases                  

   EuPathDB                            18115      18113      0.03      72      Organism-specific databases                  

   EvolutionaryTrace                   16558      16556      0.03      76      Other                                        

   ExpressionAtlas                     33167      33167      0.06      54      Gene expression databases                    

   FlyBase                              6030       5668      0.01      91      Organism-specific databases                  

   Gene3D                             472646     348366      0.86       9      Family and domain databases                  

   GeneCards                           20017      19842      0.04      65      Organism-specific databases                  

   GeneDB                                390        351     <0.01     132      Genome annotation databases                  

   GeneID                             274667     265912      0.50      22      Genome annotation databases                  

   GeneReviews                          1156       1153     <0.01     117      Organism-specific databases                  

   GeneTree                            56077      56033      0.10      44      Phylogenomic databases                       

   Genevisible                         55151      55151      0.10      45      Gene expression databases                    

   GeneWiki                            10368      10282      0.02      84      Other                                        

   GenomeRNAi                          21828      21828      0.04      63      Other                                        

   GO                                2754753     524317      4.99       1      Ontologies                                   

   Gramene                             18367      15969      0.03      71      Genome annotation databases                  

   GuidetoPHARMACOLOGY                  1889       1889     <0.01     110      Chemistry                                    

   H-InvDB                              5589       4768      0.01      93      Organism-specific databases                  

   HAMAP                              325933     323124      0.59      18      Family and domain databases                  

   HGNC                                20009      19861      0.04      66      Organism-specific databases                  

   HOGENOM                            389071     389071      0.70      15      Phylogenomic databases                       

   HOVERGEN                            75778      75778      0.14      42      Phylogenomic databases                       

   HPA                                 26773      17134      0.05      61      Organism-specific databases                  

   InParanoid                         136094     136094      0.25      27      Phylogenomic databases                       

   IntAct                              46422      46422      0.08      50      Protein-protein interaction databases        

   InterPro                          1949015     532280      3.53       2      Family and domain databases                  

   iPTMnet                             45905      45905      0.08      51      PTM databases                                

   KEGG                               501515     465101      0.91       7      Genome annotation databases                  

   KO                                 390610     390166      0.71      14      Phylogenomic databases                       

   LegioList                             765        763     <0.01     123      Organism-specific databases                  

   Leproma                               672        669     <0.01     125      Organism-specific databases                  

   MaizeGDB                              506        501     <0.01     129      Organism-specific databases                  

   MalaCards                            3773       3771      0.01     102      Organism-specific databases                  

   MaxQB                               32295      32295      0.06      55      Proteomic databases                          

   MEROPS                              12947      12947      0.02      81      Protein family/group databases               

   MGI                                 16726      16682      0.03      75      Organism-specific databases                  

   MIM                                 19899      14521      0.04      67      Organism-specific databases                  

   MINT                                31750      31750      0.06      56      Protein-protein interaction databases        

   MoonProt                               63         63     <0.01     139      Protein family/group databases               

   mycoCLAP                              349        345     <0.01     134      Protein family/group databases               

   neXtProt                            20037      20034      0.04      64      Organism-specific databases                  

   OGP                                   375        375     <0.01     133      2D gel databases                             

   OMA                                412135     412135      0.75      13      Phylogenomic databases                       

   Orphanet                             6148       3289      0.01      89      Organism-specific databases                  

   OrthoDB                            261859     261859      0.47      23      Phylogenomic databases                       

   PANTHER                            174501     167225      0.32      26      Family and domain databases                  

   PATRIC                             308293     308258      0.56      20      Genome annotation databases                  

   PaxDb                              110930     110754      0.20      34      Proteomic databases                          

   PDB                                132303      23696      0.24      31      3D structure databases                       

   PDBsum                             132303      23696      0.24      30      3D structure databases                       

   PeptideAtlas                        28660      28660      0.05      60      Proteomic databases                          

   PeroxiBase                            771        755     <0.01     122      Protein family/group databases               

   Pfam                               745185     510051      1.35       4      Family and domain databases                  

   PharmGKB                            18378      18337      0.03      70      Organism-specific databases                  

   PhosphoSite                         38693      38693      0.07      53      PTM databases                                

   PhylomeDB                           94895      94895      0.17      38      Phylogenomic databases                       

   PIR                                123116     112795      0.22      33      Sequence databases                           

   PIRSF                              104453     103415      0.19      36      Family and domain databases                  

   PMAP-CutDB                           1461       1461     <0.01     113      Other                                        

   PomBase                              5140       5136      0.01      95      Organism-specific databases                  

   PRIDE                              123973     123973      0.22      32      Proteomic databases                          

   PRINTS                             133837     118042      0.24      29      Family and domain databases                  

   PRO                                 90182      90182      0.16      39      Other                                        

   ProDom                              29155      28974      0.05      59      Family and domain databases                  

   ProMEX                                437        437     <0.01     130      Proteomic databases                          

   PROSITE                            453684     291627      0.82      11      Family and domain databases                  

   ProteinModelPortal                 444105     444105      0.80      12      3D structure databases                       

   Proteomes                          470076     448972      0.85      10      Other                                        

   PseudoCAP                            1309       1300     <0.01     114      Organism-specific databases                  

   Reactome                           100983      30635      0.18      37      Enzyme and pathway databases                 

   REBASE                                405        405     <0.01     131      Protein family/group databases               

   RefSeq                             596562     462766      1.08       6      Sequence databases                           

   REPRODUCTION-2DPAGE                  1259       1038     <0.01     115      2D gel databases                             

   RGD                                  7890       7887      0.01      86      Organism-specific databases                  

   SABIO-RK                             3384       3384      0.01     103      Enzyme and pathway databases                 

   SGD                                  6739       6734      0.01      87      Organism-specific databases                  

   SignaLink                            3002       3002      0.01     105      Enzyme and pathway databases                 

   SIGNOR                               2941       2941      0.01     106      Enzyme and pathway databases                 

   SMART                              189490     139891      0.34      25      Family and domain databases                  

   SMR                                226129     226129      0.41      24      3D structure databases                       

   STRING                             326367     326367      0.59      17      Protein-protein interaction databases        

   SUPFAM                             480252     364171      0.87       8      Family and domain databases                  

   SWISS-2DPAGE                         1180       1180     <0.01     116      2D gel databases                             

   SwissLipids                          1064        986     <0.01     119      Chemistry                                    

   SwissPalm                            5947       5947      0.01      92      PTM databases                                

   TAIR                                14775      14719      0.03      79      Organism-specific databases                  

   TCDB                                 6070       6039      0.01      90      Protein family/group databases               

   TIGRFAMs                           291985     271972      0.53      21      Family and domain databases                  

   TopDownProteomics                    3222       2944      0.01     104      Proteomic databases                          

   TreeFam                             44983      44977      0.08      52      Phylogenomic databases                       

   TubercuList                          2130       2095     <0.01     109      Organism-specific databases                  

   UCD-2DPAGE                            508        499     <0.01     128      2D gel databases                             

   UCSC                                48804      44789      0.09      47      Genome annotation databases                  

   UniCarbKB                             584        584     <0.01     127      PTM databases                                

   UniGene                            106987      94912      0.19      35      Sequence databases                           

   UniPathway                         135340     122608      0.25      28      Enzyme and pathway databases                 

   VectorBase                            731        666     <0.01     124      Genome annotation databases                  

   WBParaSite                             30         30     <0.01     141      Genome annotation databases                  

   World-2DPAGE                          925        914     <0.01     121      2D gel databases                             

   WormBase                             5557       4289      0.01      94      Organism-specific databases                  

   Xenbase                              4450       4444      0.01      98      Organism-specific databases                  

   ZFIN                                 2812       2812      0.01     107      Organism-specific databases                  



Total number of cross-referenced databases: 141



6.  AMINO ACID COMPOSITION



   6.1  Composition in percent for the complete database



   Ala (A) 8.26   Gln (Q) 3.93   Leu (L) 9.65   Ser (S) 6.60

   Arg (R) 5.53   Glu (E) 6.74   Lys (K) 5.82   Thr (T) 5.34

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

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

   Cys (C) 1.37   Ile (I) 5.93   Pro (P) 4.72   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



4463 entries are encoded on a mitochondrion, and 3845 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: 77847