UniProtKB/Swiss-Prot protein knowledgebase release 2017_04 statistics





1.  INTRODUCTION



Release 2017_04 of 12-Apr-17 of UniProtKB/Swiss-Prot contains 554241 sequence entries,

comprising 198410167 amino acids abstracted from 251858 references. 



308 sequences have been added since release 2017_03, the sequence data of

85 existing entries has been updated and the annotations of

224811 entries have been revised.



Number of fragments: 9135

Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 39541





Protein existence (PE):           entries     %



1: Evidence at protein level        94830   17.1%

2: Evidence at transcript level     57739   10.4%

3: Inferred from homology          386030   69.7%

4: Predicted                        13693    2.5%

5: Uncertain                         1949    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: 13408



   The first twenty species represent 119034 sequences:  21.5 % of the total

   number of entries.





   2.1 Table of the frequency of occurrence of species



        Species represented 1x: 5561

                            2x: 1919

                            3x: 1051

                            4x:  668

                            5x:  492

                            6x:  405

                            7x:  286

                            8x:  239

                            9x:  232

                           10x:  131

                       11- 20x:  718

                       21- 50x:  440

                       51-100x:  217

                         >100x: 1049





   2.2  Table of the most represented species



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

  Number  Frequency  Species

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

       1      20198  Homo sapiens (Human)

       2      16858  Mus musculus (Mouse)

       3      15269  Arabidopsis thaliana (Mouse-ear cress)

       4       7985  Rattus norvegicus (Rat)

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

       6       5998  Bos taurus (Bovine)

       7       5141  Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)

       8       4434  Escherichia coli (strain K12)

       9       4185  Bacillus subtilis (strain 168)

      10       4134  Dictyostelium discoideum (Slime mold)

      11       3881  Caenorhabditis elegans

      12       3767  Oryza sativa subsp. japonica (Rice)

      13       3460  Drosophila melanogaster (Fruit fly)

      14       3408  Xenopus laevis (African clawed frog)

      15       2998  Danio rerio (Zebrafish) (Brachydanio rerio)

      16       2284  Gallus gallus (Chicken)

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

      18       2165  Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)

      19       2032  Escherichia coli O157:H7

      20       1897  Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)

      21       1793  Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

      22       1787  Methanocaldococcus jannaschii  

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

      24       1704  Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)

      25       1692  Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

      26       1680  Shigella flexneri

      27       1419  Sus scrofa (Pig)

      28       1347  Salmonella typhi

      29       1309  Pseudomonas aeruginosa 

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

      31       1171  Macaca fascicularis (Crab-eating macaque) (Cynomolgus monkey)

      32       1063  Synechocystis sp. (strain PCC 6803 / Kazusa)

      33       1029  Archaeoglobus fulgidus 

      34       1022  Yersinia pestis

      35        990  Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)

      36        974  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        892  Oryctolagus cuniculus (Rabbit)

      47        889  Staphylococcus aureus (strain MSSA476)

      48        888  Staphylococcus aureus (strain MRSA252)

      49        882  Salmonella choleraesuis (strain SC-B67)

      50        879  Shigella sonnei (strain Ss046)

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

      52        873  Emericella nidulans  

      53        863  Yersinia pseudotuberculosis serotype I (strain IP32953)

      54        862  Candida glabrata   

      55        853  Neurospora crassa 

      56        841  Escherichia coli O9:H4 (strain HS)

      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        816  Canis lupus familiaris (Dog) (Canis familiaris)

      63        809  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        778  Zea mays (Maize)

      69        776  Pasteurella multocida (strain Pm70)

      70        774  Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)

      71        771  Escherichia coli (strain K12 / DH10B)

      72        771  Escherichia coli O127:H6 (strain E2348/69 / EPEC)

      73        765  Escherichia coli (strain K12 / MC4100 / BW2952)

      74        764  Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC)

      75        762  Escherichia coli (strain 55989 / EAEC)

      76        761  Escherichia coli O8 (strain IAI1)

      77        760  Shigella flexneri serotype 5b (strain 8401)

      78        760  Staphylococcus epidermidis (strain ATCC 35984 / RP62A)

      79        760  Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) 

      80        758  Staphylococcus epidermidis (strain ATCC 12228)

      81        757  Staphylococcus aureus (strain NCTC 8325)

      82        756  Escherichia coli (strain SE11)

      83        756  Escherichia coli O45:K1 (strain S88 / ExPEC)

      84        753  Escherichia coli O7:K1 (strain IAI39 / ExPEC)

      85        748  Escherichia coli O157:H7 (strain EC4115 / EHEC)

      86        745  Photorhabdus luminescens subsp. laumondii (strain DSM 15139 / CIP 105565 / TT01)

      87        741  Bacillus anthracis

      88        741  Bacillus halodurans 

      89        737  Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 8081)

      90        733  Vibrio vulnificus (strain CMCP6)

      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  Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)

     102        713  Salmonella newport (strain SL254)

     103        713  Yersinia pseudotuberculosis serotype O:1b (strain IP 31758)

     104        712  Salmonella schwarzengrund (strain CVM19633)

     105        711  Yersinia pestis bv. Antiqua (strain Antiqua)

     106        710  Salmonella heidelberg (strain SL476)

     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        679  Pseudomonas syringae pv. tomato (strain ATCC BAA-871 / DC3000)

     116        678  Citrobacter koseri (strain ATCC BAA-895 / CDC 4225-83 / SGSC4696)

     117        673  Staphylococcus aureus (strain USA300)

     118        670  Serratia proteamaculans (strain 568)

     119        670  Escherichia coli

     120        669  Mycobacterium leprae (strain TN)

     121        667  Yersinia pestis (strain Pestoides F)

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

     141        603  Ralstonia solanacearum (strain GMI1000) (Pseudomonas solanacearum)

     142        602  Photobacterium profundum (strain SS9)

     143        602  Staphylococcus saprophyticus subsp. saprophyticus 

     144        601  Salmonella paratyphi C (strain RKS4594)

     145        600  Yersinia pestis bv. Antiqua (strain Angola)

     146        593  Bacillus cereus (strain ATCC 10987 / NRS 248)

     147        593  Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)

     148        591  Pseudomonas aeruginosa (strain UCBPP-PA14)

     149        591  Pectobacterium carotovorum subsp. carotovorum (strain PC1)

     150        586  Rickettsia prowazekii (strain Madrid E)

     151        580  Neisseria meningitidis serogroup B (strain MC58)

     152        579  Brucella suis biovar 1 (strain 1330)

     153        577  Caenorhabditis briggsae

     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        546  Pseudomonas savastanoi pv. phaseolicola  (Pseudomonas syringae pv. phaseolicola 

     171        546  Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)

     172        544  Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)

     173        536  Lactococcus lactis subsp. lactis (strain IL1403) (Streptococcus lactis)

     174        531  Erwinia tasmaniensis (strain DSM 17950 / CIP 109463 / Et1/99)

     175        529  Sodalis glossinidius (strain morsitans)

     176        529  Listeria monocytogenes serotype 4b (strain F2365)

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

     178        522  Xylella fastidiosa (strain 9a5c)

     179        518  Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)

     180        518  Corynebacterium glutamicum 

     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        513  Deinococcus radiodurans 

     185        512  Pseudomonas aeruginosa (strain PA7)

     186        511  Staphylococcus aureus (strain Newman)

     187        510  Haemophilus ducreyi (strain 35000HP / ATCC 700724)

     188        509  Geobacillus kaustophilus (strain HTA426)

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

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

     191        507  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  Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 / JCM 12185 / C2A)

     197        496  Bacillus clausii (strain KSM-K16)

     198        495  Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)

     199        495  Burkholderia pseudomallei (strain K96243)

     200        495  Haemophilus influenzae (strain 86-028NP)

     201        494  Proteus mirabilis (strain HI4320)

     202        493  Xanthomonas campestris pv. campestris (strain 8004)

     203        492  Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1)

     204        492  Bacillus velezensis (strain DSM 23117 / BGSC 10A6 / FZB42) 

     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  Brucella abortus (strain 2308)

     216        483  Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195)

     217        482  Pyrococcus horikoshii 

     218        479  Streptococcus pneumoniae (strain ATCC BAA-255 / R6)

     219        479  Synechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)

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

     224        469  Nicotiana tabacum (Common tobacco)

     225        468  Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)

     226        468  Clostridium perfringens (strain 13 / Type A)

     227        467  Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337) 

     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        456  Ovis aries (Sheep)

     243        455  Staphylococcus aureus (strain JH1)

     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           19442 (  4%)

    Bacteria         332976 ( 60%)

    Eukaryota        185107 ( 33%)

    Viruses           16716 (  3%)





   Within Eukaryota:



   



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

     Human                  20199 ( 11%)           (  4%)

     Other Mammalia         46423 ( 25%)           (  8%)

     Other Vertebrata       18030 ( 10%)           (  3%)

     Viridiplantae          38657 ( 21%)           (  7%)

     Fungi                  32652 ( 18%)           (  6%)

     Insecta                 9055 (  5%)           (  2%)

     Nematoda                4770 (  3%)           (  1%)

     Other                  15321 (  8%)           (  3%)







3.  SEQUENCE SIZE



   Repartition of the sequences by size (excluding fragments)



               From   To  Number             From   To   Number

                  1-  50    9234             1001-1100     3936

                 51- 100   42233             1101-1200     2762

                101- 150   58689             1201-1300     2122

                151- 200   58654             1301-1400     1972

                201- 250   57461             1401-1500     1581

                251- 300   51133             1501-1600      773

                301- 350   51456             1601-1700      601

                351- 400   44630             1701-1800      522

                401- 450   36664             1801-1900      455

                451- 500   29511             1901-2000      366

                501- 550   21188             2001-2100      241

                551- 600   15149             2101-2200      318

                601- 650   12669             2201-2300      304

                651- 700    9142             2301-2400      197

                701- 750    7586             2401-2500      153

                751- 800    5433             >2500         1198

                801- 850    4721

                851- 900    5172

                901- 950    4002

                951-1000    2878



   





   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: 2653





   4.1 Table of the frequency of journal citations



        Journals cited 1x:  850

                       2x:  366

                       3x:  167

                       4x:  128

                       5x:  102

                       6x:   95

                       7x:   59

                       8x:   52

                       9x:   37

                      10x:   30

                  11- 20x:  215

                  21- 50x:  214

                  51-100x:  117

                    >100x:  221





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



   Nb    Citations   Journal name

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

    1        23715   Journal of Biological Chemistry

    2        10878   Proceedings of the National Academy of Sciences of the U.S.A.

    3         6402   Journal of Bacteriology

    4         5458   Biochemical and Biophysical Research Communications

    5         5109   Biochemistry

    6         4904   Nucleic Acids Research

    7         4768   Gene

    8         4716   FEBS Letters

    9         4577   The EMBO Journal

   10         4268   Nature

   11         4262   Molecular and Cellular Biology

   12         4114   Journal of Molecular Biology

   13         3531   Biochimica et Biophysica Acta

   14         3428   Cell

   15         3358   European Journal of Biochemistry

   16         3010   Journal of Virology

   17         2869   Science

   18         2770   Biochemical Journal

   19         2526   Genomics

   20         2418   Molecular Microbiology

   21         2392   Plant Physiology

   22         2109   Journal of Cell Biology

   23         2000   The American Journal of Human Genetics

   24         1858   The Plant Cell

   25         1810   Plant Molecular Biology

   26         1776   Genes and Development

   27         1718   Human Molecular Genetics

   28         1704   The Plant Journal

   29         1698   Virology

   30         1688   Nature Genetics

   31         1591   Development

   32         1581   Molecular Biology of the Cell

   33         1575   PLoS ONE

   34         1519   Oncogene

   35         1503   Human Mutation

   36         1422   Molecular Cell

   37         1387   Molecular and General Genetics

   38         1352   Journal of Immunology

   39         1318   Journal of Biochemistry

   40         1268   Structure

   41         1257   Genetics

   42         1170   Journal of Cell Science

   43         1112   Blood

   44         1097   Journal of General Virology

   45         1090   Infection and Immunity

   46         1028   Microbiology

   47         1011   Archives of Biochemistry and Biophysics

   48          992   Current Biology

   49          978   Developmental Biology

   50          867   Cancer Research

   51          840   Journal of Neuroscience

   52          828   Acta Crystallographica, Section D

   53          827   Yeast

   54          812   Applied and Environmental Microbiology

   55          812   FEMS Microbiology Letters

   56          740   Protein Science

   57          733   Toxicon

   58          695   Neuron

   59          690   Journal of Clinical Investigation

   60          671   Human Genetics

   61          643   American Journal of Physiology

   62          640   Nature Structural Biology

   63          638   Mechanisms of Development

   64          633   Plant and Cell Physiology

   65          597   The Journal of Experimental Medicine

   66          581   Proteins

   67          564   Current Genetics

   68          560   Journal of Medical Genetics

   69          535   Nature Cell Biology

   70          527   Molecular Endocrinology

   71          519   Bioscience, Biotechnology, and Biochemistry

   72          515   Journal of Neurochemistry

   73          512   PLoS Genetics

   74          502   The Journal of Clinical Endocrinology and Metabolism

   75          488   Mammalian Genome

   76          486   Endocrinology

   77          467   Nature Structural and Molecular Biology

   78          465   Immunogenetics

   79          457   The FEBS Journal

   80          455   Developmental Cell

   81          446   Molecular and Biochemical Parasitology

   82          438   Experimental Cell Research

   83          428   Antimicrobial Agents and Chemotherapy

   84          407   Eukaryotic Cell

   85          407   Journal of Molecular Evolution

   86          397   Peptides

   87          395   RNA

   88          390   Molecular Biology and Evolution

   89          390   Planta

   90          385   DNA and Cell Biology

   91          370   DNA Sequence

   92          352   Molecular Pharmacology

   93          350   Journal of Investigative Dermatology

   94          345   Neurology

   95          343   Comparative Biochemistry and Physiology

   96          336   Journal of the American Chemical Society

   97          336   Brain Research. Molecular Brain Research

   98          333   EMBO Reports

   99          325   The FASEB Journal

  100          325   Tissue Antigens

  101          321   Biology of Reproduction

  102          320   Journal of Experimental Botany

  103          310   Molecular Plant-Microbe Interactions

  104          310   European Journal of Human Genetics

  105          309   Immunity

  106          306   Acta Crystallographica, Section F

  107          304   Developmental Dynamics

  108          303   Genes to Cells

  109          302   Biochimie

  110          300   The New England Journal of Medicine

  111          295   Biological Chemistry Hoppe-Seyler

  112          295   Virus Research

  113          285   Genome Research

  114          285   American Journal of Medical Genetics. Part A

  115          282   Cytogenetics and Cell Genetics

  116          275   PLoS Pathogens

  117          272   Annals of Neurology

  118          268   Journal of General Microbiology

  119          260   Clinical Genetics

  120          256   European Journal of Immunology

  121          255   BMC Genomics

  122          248   Investigative Ophthalmology and Visual Science

  123          246   Nature Immunology

  124          240   Journal of Human Genetics

  125          239   Nature Communications

  126          235   Archives of Microbiology

  127          232   Journal of Medicinal Chemistry

  128          230   Applied Microbiology and Biotechnology

  129          227   DNA Research

  130          222   Journal of Cellular Biochemistry

  131          219   Glycobiology

  132          218   Hoppe-Seyler's Zeitschrift fur Physiologische Chemie

  133          218   PLoS Biology

  134          210   Traffic

  135          208   Molecular Genetics and Metabolism

  136          206   Circulation Research

  137          205   Archives of Virology

  138          204   Molecular Immunology

  139          204   Cell Cycle

  140          201   Diabetes

  141          201   Journal of Lipid Research

  142          200   Molecular and Cellular Endocrinology

  143          196   Protein Expression and Purification

  144          190   Phytochemistry

  145          183   Molecular Genetics and Genomics

  146          182   Nature Medicine

  147          179   Insect Biochemistry and Molecular Biology

  148          178   International Journal of Cancer

  149          175   Molecular and Cellular Neuroscience

  150          173   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)                      1180280                 2.13                                         

   Journal                            986515     447120      1.78       1                                 

   Submitted to EMBL/GenBank/DDBJ     183259     160756      0.33       2                                 

   Submitted to other databases         7229       6701      0.01       3                                 

   Book citation                        1649       1626     <0.01       4                                 

   Plant Gene Register                   605        593     <0.01       5                                 

   Thesis                                429        426     <0.01       6                                 

   Unpublished observations              390        386     <0.01       7                                 

   Patent                                198        194     <0.01       8                                 

   Worm Breeder's Gazette                  6          6     <0.01       9                                 



Total number of distinct authors cited in UniProtKB/Swiss-Prot: 387752



                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Comments (CC)                        2452556                 4.43                                         

   ALLERGEN                              713        713     <0.01      26                                 

   ALTERNATIVE PRODUCTS                24837      24837      0.04      13                                 

   BIOPHYSICOCHEMICAL PROPERTIES        7480       7480      0.01      21                                 

   BIOTECHNOLOGY                         794        792     <0.01      25                                 

   CATALYTIC ACTIVITY                 263279     234454      0.48       5                                 

   CAUTION                             12425      12193      0.02      17                                 

   COFACTOR                           119875     110185      0.22       7                                 

   DEVELOPMENTAL STAGE                 11411      11411      0.02      19                                 

   DISEASE                              6530       4357      0.01      22                                 

   DISRUPTION PHENOTYPE                11791      11791      0.02      18                                 

   DOMAIN                              45384      39206      0.08       9                                 

   ENZYME REGULATION                   13877      13875      0.03      16                                 

   FUNCTION                           453678     434774      0.82       2                                 

   INDUCTION                           19256      19248      0.03      14                                 

   INTERACTION                         15789      15789      0.03      15                                 

   MASS SPECTROMETRY                    6338       4782      0.01      23                                 

   MISCELLANEOUS                       36506      33658      0.07      12                                 

   PATHWAY                            136558     123779      0.25       6                                 

   PHARMACEUTICAL                         99         99     <0.01      29                                 

   POLYMORPHISM                         1193       1137     <0.01      24                                 

   PTM                                 52372      39562      0.09       8                                 

   RNA EDITING                           627        627     <0.01      28                                 

   SEQUENCE CAUTION                    43671      43671      0.08      11                                 

   SIMILARITY                         502509     498373      0.91       1                                 

   SUBCELLULAR LOCATION               343283     336455      0.62       3                                 

   SUBUNIT                            269787     269578      0.49       4                                 

   TISSUE SPECIFICITY                  43856      43855      0.08      10                                 

   TOXIC DOSE                            631        585     <0.01      27                                 

   WEB RESOURCE                         8007       6792      0.01      20                                 



Total number of comment topics: 29





                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Features (FT)                        4296354                 7.75                                         

   ACT_SITE                           159620      97403      0.29      10                                 

   BINDING                            380380     100296      0.69       2                                 

   CA_BIND                              4109       1712      0.01      36                                 

   CARBOHYD                           113616      29125      0.20      15                                 

   CHAIN                              561798     547654      1.01       1                                 

   COILED                              21725      14992      0.04      26                                 

   COMPBIAS                            58356      31315      0.11      19                                 

   CONFLICT                           133784      46771      0.24      13                                 

   CROSSLNK                            12538       6131      0.02      30                                 

   DISULFID                           119559      32396      0.22      14                                 

   DNA_BIND                            11469      10393      0.02      32                                 

   DOMAIN                             186838     114382      0.34       8                                 

   HELIX                              231936      21693      0.42       7                                 

   INIT_MET                            18395      18395      0.03      27                                 

   INTRAMEM                             2437       1068     <0.01      37                                 

   LIPID                               12807       8249      0.02      29                                 

   METAL                              363867      90759      0.66       4                                 

   MOD_RES                            240393      70724      0.43       6                                 

   MOTIF                               40775      26141      0.07      24                                 

   MUTAGEN                             61455      13781      0.11      18                                 

   NON_CONS                             2250        784     <0.01      38                                 

   NON_STD                               359        284     <0.01      39                                 

   NON_TER                             12284       9394      0.02      31                                 

   NP_BIND                            148168      82653      0.27      11                                 

   PEPTIDE                             10947       7454      0.02      33                                 

   PROPEP                              13708      11758      0.02      28                                 

   REGION                             186707      88640      0.34       9                                 

   REPEAT                             102174      14527      0.18      16                                 

   SIGNAL                              40940      40930      0.07      23                                 

   SITE                                53021      29495      0.10      21                                 

   STRAND                             242094      20450      0.44       5                                 

   TOPO_DOM                           137258      28301      0.25      12                                 

   TRANSIT                              8857       8743      0.02      34                                 

   TRANSMEM                           365836      76343      0.66       3                                 

   TURN                                55820      17590      0.10      20                                 

   UNSURE                               4383        764      0.01      35                                 

   VAR_SEQ                             51477      21718      0.09      22                                 

   VARIANT                             94041      16970      0.17      17                                 

   ZN_FING                             30173      13262      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)               18071462                32.61                                                           

   Allergome                            1719       1124     <0.01     116      Protein family/group databases               

   ArachnoServer                        1146       1136     <0.01     123      Organism-specific databases                  

   Araport                             15289      15196      0.03      81      Organism-specific databases                  

   Bgee                                55069      55068      0.10      45      Gene expression databases                    

   BindingDB                            4688       4688      0.01     101      Chemistry                                    

   BioCyc                              44194      40883      0.08      52      Enzyme and pathway databases                 

   BioGrid                             48743      48270      0.09      47      Protein-protein interaction databases        

   BioMuta                             17244      17239      0.03      76      Polymorphism and mutation databases          

   BRENDA                              12819      12047      0.02      85      Enzyme and pathway databases                 

   CAZy                                 9412       8488      0.02      89      Protein family/group databases               

   CCDS                                47516      33782      0.09      49      Sequence databases                           

   CDD                                136843     130696      0.25      29      Family and domain databases                  

   CGD                                  1875       1860     <0.01     115      Organism-specific databases                  

   ChEMBL                               6219       6219      0.01      93      Chemistry                                    

   ChiTaRS                             16509      16498      0.03      79      Other                                        

   CleanEx                             30033      29393      0.05      58      Gene expression databases                    

   CollecTF                              133        133     <0.01     142      Gene expression databases                    

   COMPLUYEAST-2DPAGE                     97         97     <0.01     143      2D gel databases                             

   ConoServer                            949        866     <0.01     124      Organism-specific databases                  

   CTD                                 74170      73403      0.13      42      Organism-specific databases                  

   DEPOD                                 239        239     <0.01     139      PTM databases                                

   dictyBase                            4210       4095      0.01     105      Organism-specific databases                  

   DIP                                 17287      17231      0.03      75      Protein-protein interaction databases        

   DisGeNET                            14919      14700      0.03      82      Organism-specific databases                  

   DisProt                               699        699     <0.01     128      3D structure databases                       

   DMDM                                16370      16306      0.03      80      Polymorphism and mutation databases          

   DNASU                               18917      18844      0.03      70      Protocols and materials databases            

   DOSAC-COBS-2DPAGE                     146        146     <0.01     140      2D gel databases                             

   DrugBank                            18545       3613      0.03      71      Chemistry                                    

   EchoBASE                             4161       4161      0.01     106      Organism-specific databases                  

   EcoGene                              4294       4292      0.01     103      Organism-specific databases                  

   eggNOG                             660700     329671      1.19       5      Phylogenomic databases                       

   EMBL                               987120     542886      1.78       3      Sequence databases                           

   Ensembl                             85767      48942      0.15      40      Genome annotation databases                  

   EnsemblBacteria                    353824     334743      0.64      17      Genome annotation databases                  

   EnsemblFungi                        31230      28667      0.06      57      Genome annotation databases                  

   EnsemblMetazoa                      13828      10175      0.02      84      Genome annotation databases                  

   EnsemblPlants                       23983      19398      0.04      63      Genome annotation databases                  

   EnsemblProtists                      5165       4989      0.01      99      Genome annotation databases                  

   EPD                                 20745      20745      0.04      65      Proteomic databases                          

   ESTHER                               2462       2460     <0.01     112      Protein family/group databases               

   euHCVdb                                55         44     <0.01     145      Organism-specific databases                  

   EuPathDB                            18264      18261      0.03      73      Organism-specific databases                  

   EvolutionaryTrace                   16582      16582      0.03      78      Other                                        

   ExpressionAtlas                     37182      37182      0.07      54      Gene expression databases                    

   FlyBase                              6148       5791      0.01      94      Organism-specific databases                  

   Gene3D                             429092     325176      0.77      12      Family and domain databases                  

   GeneCards                           20339      19943      0.04      66      Organism-specific databases                  

   GeneDB                                562        506     <0.01     132      Genome annotation databases                  

   GeneID                             290669     280860      0.52      23      Genome annotation databases                  

   GeneReviews                          1156       1153     <0.01     122      Organism-specific databases                  

   GeneTree                            57889      57850      0.10      43      Phylogenomic databases                       

   Genevisible                         55175      55175      0.10      44      Gene expression databases                    

   GeneWiki                            10368      10282      0.02      88      Other                                        

   GenomeRNAi                          21943      21941      0.04      64      Other                                        

   GO                                2734556     527046      4.93       1      Ontologies                                   

   Gramene                             23986      19401      0.04      62      Genome annotation databases                  

   GuidetoPHARMACOLOGY                  1977       1977     <0.01     114      Chemistry                                    

   H-InvDB                              5588       4767      0.01      98      Organism-specific databases                  

   HAMAP                              326420     323733      0.59      19      Family and domain databases                  

   HGNC                                20130      19982      0.04      69      Organism-specific databases                  

   HOGENOM                            389985     389985      0.70      16      Phylogenomic databases                       

   HOVERGEN                            75794      75794      0.14      41      Phylogenomic databases                       

   HPA                                 27065      16800      0.05      61      Organism-specific databases                  

   IMGT_GENE-DB                          135        135     <0.01     141      Protein family/group databases               

   InParanoid                         136449     136449      0.25      30      Phylogenomic databases                       

   IntAct                              47865      47865      0.09      48      Protein-protein interaction databases        

   InterPro                          1976264     535261      3.57       2      Family and domain databases                  

   iPTMnet                             45959      45959      0.08      50      PTM databases                                

   KEGG                               501743     472387      0.91       7      Genome annotation databases                  

   KO                                 398485     398025      0.72      15      Phylogenomic databases                       

   LegioList                             765        763     <0.01     127      Organism-specific databases                  

   Leproma                               672        669     <0.01     129      Organism-specific databases                  

   MaizeGDB                              508        503     <0.01     133      Organism-specific databases                  

   MalaCards                            4234       4217      0.01     104      Organism-specific databases                  

   MaxQB                               28559      28559      0.05      60      Proteomic databases                          

   MEROPS                              11312      11312      0.02      86      Protein family/group databases               

   MGI                                 16772      16729      0.03      77      Organism-specific databases                  

   MIM                                 20222      14670      0.04      67      Organism-specific databases                  

   MINT                                31853      31853      0.06      55      Protein-protein interaction databases        

   MoonProt                               63         63     <0.01     144      Protein family/group databases               

   mycoCLAP                              356        352     <0.01     138      Protein family/group databases               

   neXtProt                            20152      20152      0.04      68      Organism-specific databases                  

   OGP                                   375        375     <0.01     137      2D gel databases                             

   OMA                                413594     413594      0.75      13      Phylogenomic databases                       

   OpenTargets                         18101      17928      0.03      74      Organism-specific databases                  

   Orphanet                             6146       3288      0.01      95      Organism-specific databases                  

   OrthoDB                            291341     291341      0.53      22      Phylogenomic databases                       

   PANTHER                            221828     209535      0.40      24      Family and domain databases                  

   PATRIC                             308474     308439      0.56      20      Genome annotation databases                  

   PaxDb                              112256     112256      0.20      35      Proteomic databases                          

   PDB                                144356      24680      0.26      27      3D structure databases                       

   PDBsum                             144356      24680      0.26      26      3D structure databases                       

   PeptideAtlas                        31783      31783      0.06      56      Proteomic databases                          

   PeroxiBase                            771        755     <0.01     126      Protein family/group databases               

   Pfam                               746713     511653      1.35       4      Family and domain databases                  

   PharmGKB                            18377      18335      0.03      72      Organism-specific databases                  

   PhosphoSitePlus                     38576      38576      0.07      53      PTM databases                                

   PhylomeDB                           95406      95406      0.17      38      Phylogenomic databases                       

   PIR                                123593     113182      0.22      33      Sequence databases                           

   PIRSF                              104622     103575      0.19      37      Family and domain databases                  

   PMAP-CutDB                           1461       1461     <0.01     117      Other                                        

   PomBase                              5133       5129      0.01     100      Organism-specific databases                  

   PRIDE                              141626     141626      0.26      28      Proteomic databases                          

   PRINTS                             133845     118179      0.24      32      Family and domain databases                  

   PRO                                 91598      91598      0.17      39      Other                                        

   ProDom                              29227      29045      0.05      59      Family and domain databases                  

   ProMEX                                449        449     <0.01     135      Proteomic databases                          

   PROSITE                            456853     293440      0.82      10      Family and domain databases                  

   ProteinModelPortal                 447049     447049      0.81      11      3D structure databases                       

   Proteomes                          474613     452169      0.86       9      Other                                        

   PseudoCAP                            1317       1308     <0.01     118      Organism-specific databases                  

   Reactome                           112679      34281      0.20      34      Enzyme and pathway databases                 

   REBASE                                407        407     <0.01     136      Protein family/group databases               

   RefSeq                             610676     465716      1.10       6      Sequence databases                           

   REPRODUCTION-2DPAGE                  1259       1038     <0.01     119      2D gel databases                             

   RGD                                  7911       7908      0.01      90      Organism-specific databases                  

   SABIO-RK                             3547       3547      0.01     107      Enzyme and pathway databases                 

   SFLD                                10642       6399      0.02      87      Family and domain databases                  

   SGD                                  6739       6734      0.01      91      Organism-specific databases                  

   SignaLink                            3019       3019      0.01     110      Enzyme and pathway databases                 

   SIGNOR                               3427       3427      0.01     108      Enzyme and pathway databases                 

   SMART                              190572     140668      0.34      25      Family and domain databases                  

   SMR                                402450     402450      0.73      14      3D structure databases                       

   STRING                             327556     327555      0.59      18      Protein-protein interaction databases        

   SUPFAM                             483638     368553      0.87       8      Family and domain databases                  

   SWISS-2DPAGE                         1180       1180     <0.01     120      2D gel databases                             

   SwissLipids                          1161       1080     <0.01     121      Chemistry                                    

   SwissPalm                            5947       5947      0.01      96      PTM databases                                

   TAIR                                14111      14056      0.03      83      Organism-specific databases                  

   TCDB                                 6349       6314      0.01      92      Protein family/group databases               

   TIGRFAMs                           292330     272341      0.53      21      Family and domain databases                  

   TopDownProteomics                    3250       2970      0.01     109      Proteomic databases                          

   TreeFam                             45078      45070      0.08      51      Phylogenomic databases                       

   TubercuList                          2183       2147     <0.01     113      Organism-specific databases                  

   UCD-2DPAGE                            497        497     <0.01     134      2D gel databases                             

   UCSC                                49447      45229      0.09      46      Genome annotation databases                  

   UniCarbKB                             584        584     <0.01     131      PTM databases                                

   UniGene                            107823      95126      0.19      36      Sequence databases                           

   UniPathway                         135855     123089      0.25      31      Enzyme and pathway databases                 

   VectorBase                            670        592     <0.01     130      Genome annotation databases                  

   WBParaSite                             32         32     <0.01     146      Genome annotation databases                  

   World-2DPAGE                          928        917     <0.01     125      2D gel databases                             

   WormBase                             5780       4434      0.01      97      Organism-specific databases                  

   Xenbase                              4486       4479      0.01     102      Organism-specific databases                  

   ZFIN                                 2839       2839      0.01     111      Organism-specific databases                  



Total number of cross-referenced databases: 146



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) 5.35

   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) 6.86



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



   



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

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





   6.2  Classification of the amino acids by their frequency



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

   Phe, Tyr, Met, His, Cys, Trp





7.  MISCELLANEOUS STATISTICS



4464 entries are encoded on a mitochondrion, and 3848 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: 78447