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         UniProtKB/Swiss-Prot protein knowledgebase release 2017_09 statistics





1.  INTRODUCTION



Release 2017_09 of 27-Sep-17 of UniProtKB/Swiss-Prot contains 555594 sequence entries,

comprising 199016217 amino acids abstracted from 255027 references. 



174 sequences have been added since release 2017_08, the sequence data of

27 existing entries has been updated and the annotations of

76399 entries have been revised.



Number of fragments: 9134

Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 39675





Protein existence (PE):           entries     %



1: Evidence at protein level        96728   17.4%

2: Evidence at transcript level     57131   10.3%

3: Inferred from homology          386187   69.5%

4: Predicted                        13682    2.5%

5: Uncertain                         1866    0.3%



The growth of the database is summarized below.



   





2.  TAXONOMIC ORIGIN



   Total number of species represented in this release of UniProtKB/Swiss-Prot: 13501



   The first twenty species represent 119570 sequences:  21.5 % of the total

   number of entries.





   2.1 Table of the frequency of occurrence of species



        Species represented 1x: 5610

                            2x: 1926

                            3x: 1044

                            4x:  680

                            5x:  498

                            6x:  408

                            7x:  287

                            8x:  242

                            9x:  233

                           10x:  133

                       11- 20x:  729

                       21- 50x:  445

                       51-100x:  217

                         >100x: 1049





   2.2  Table of the most represented species



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

  Number  Frequency  Species

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

       1      20237  Homo sapiens (Human)

       2      16923  Mus musculus (Mouse)

       3      15479  Arabidopsis thaliana (Mouse-ear cress)

       4       7996  Rattus norvegicus (Rat)

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

       6       5999  Bos taurus (Bovine)

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

       8       4435  Escherichia coli (strain K12)

       9       4185  Bacillus subtilis (strain 168)

      10       4134  Dictyostelium discoideum (Slime mold)

      11       3949  Caenorhabditis elegans

      12       3865  Oryza sativa subsp. japonica (Rice)

      13       3478  Drosophila melanogaster (Fruit fly)

      14       3411  Xenopus laevis (African clawed frog)

      15       3014  Danio rerio (Zebrafish) (Brachydanio rerio)

      16       2287  Gallus gallus (Chicken)

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

      18       2166  Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)

      19       2033  Escherichia coli O157:H7

      20       1898  Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)

      21       1795  Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

      22       1787  Methanocaldococcus jannaschii  

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

      24       1705  Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)

      25       1694  Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

      26       1681  Shigella flexneri

      27       1420  Sus scrofa (Pig)

      28       1347  Salmonella typhi

      29       1316  Pseudomonas aeruginosa 

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

      31       1172  Macaca fascicularis (Crab-eating macaque) (Cynomolgus monkey)

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

      33       1029  Archaeoglobus fulgidus 

      34       1022  Yersinia pestis

      35       1004  Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)

      36        975  Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)

      37        930  Staphylococcus aureus (strain Mu50 / ATCC 700699)

      38        930  Salmonella paratyphi A (strain ATCC 9150 / SARB42)

      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        893  Oryctolagus cuniculus (Rabbit)

      46        892  Escherichia coli O6:K15:H31 (strain 536 / UPEC)

      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        878  Emericella nidulans  

      53        863  Yersinia pseudotuberculosis serotype I (strain IP32953)

      54        862  Candida glabrata   

      55        854  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        810  Oryza sativa subsp. indica (Rice)

      64        796  Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672) 

      65        793  Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)

      66        792  Zea mays (Maize)

      67        791  Escherichia coli (strain SMS-3-5 / SECEC)

      68        784  Aquifex aeolicus (strain VF5)

      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 O17:K52:H18 (strain UMN026 / ExPEC)

      74        765  Escherichia coli (strain K12 / MC4100 / BW2952)

      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        759  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        718  Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)

      95        716  Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7)

      96        715  Yersinia pestis bv. Antiqua (strain Nepal516)

      97        715  Enterobacter sp. (strain 638)

      98        714  Escherichia coli O1:K1 / APEC

      99        714  Salmonella paratyphi A (strain AKU_12601)

     100        713  Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)

     101        713  Salmonella agona (strain SL483)

     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        671  Escherichia coli

     119        670  Serratia proteamaculans (strain 568)

     120        669  Mycobacterium leprae (strain TN)

     121        667  Yersinia pestis (strain Pestoides F)

     122        665  Bacillus cereus 

     123        662  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        610  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        594  Bacillus cereus (strain ATCC 10987 / NRS 248)

     147        594  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        582  Neisseria meningitidis serogroup B (strain MC58)

     152        579  Brucella suis biovar 1 (strain 1330)

     153        577  Caenorhabditis briggsae

     154        574  Brucella melitensis biotype 1 (strain 16M / ATCC 23456 / NCTC 10094)

     155        573  Vibrio fischeri (strain ATCC 700601 / ES114)

     156        572  Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) 

     157        571  Caulobacter crescentus (strain ATCC 19089 / CB15)

     158        569  Bacillus thuringiensis subsp. konkukian (strain 97-27)

     159        568  Helicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99)

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

     170        549  Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)

     171        547  Pseudomonas savastanoi pv. phaseolicola  (Pseudomonas syringae pv. phaseolicola 

     172        547  Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)

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

     178        523  Corynebacterium glutamicum 

     179        522  Xylella fastidiosa (strain 9a5c)

     180        518  Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)

     181        517  Chromobacterium violaceum 

     182        516  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        511  Aspergillus oryzae (strain ATCC 42149 / RIB 40) (Yellow koji mold)

     188        510  Haemophilus ducreyi (strain 35000HP / ATCC 700724)

     189        510  Geobacillus kaustophilus (strain HTA426)

     190        508  Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253)

     191        507  Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp)

     192        507  Streptomyces avermitilis 

     193        502  Pseudomonas entomophila (strain L48)

     194        501  Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)

     195        499  Brucella abortus biovar 1 (strain 9-941)

     196        497  Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 / JCM 12185 / C2A)

     197        497  Haemophilus influenzae (strain 86-028NP)

     198        497  Rickettsia conorii (strain ATCC VR-613 / Malish 7)

     199        496  Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)

     200        496  Bacillus clausii (strain KSM-K16)

     201        495  Burkholderia pseudomallei (strain K96243)

     202        494  Proteus mirabilis (strain HI4320)

     203        493  Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1)

     204        493  Xanthomonas campestris pv. campestris (strain 8004)

     205        492  Bacillus velezensis (strain DSM 23117 / BGSC 10A6 / FZB42) 

     206        491  Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1) 

     207        490  Vibrio campbellii (strain ATCC BAA-1116 / BB120)

     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  Pyrococcus horikoshii 

     216        483  Brucella abortus (strain 2308)

     217        483  Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195)

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

     223        474  Burkholderia lata (strain ATCC 17760 / LMG 22485 / NCIMB 9086 / R18194 / 383)

     224        474  Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337) 

     225        472  Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)

     226        471  Nicotiana tabacum (Common tobacco)

     227        471  Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)

     228        468  Clostridium perfringens (strain 13 / Type A)

     229        466  Rhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)

     230        466  Xanthomonas campestris pv. vesicatoria (strain 85-10)

     231        466  Shewanella frigidimarina (strain NCIMB 400)

     232        466  Pseudomonas putida (strain GB-1)

     233        466  Shewanella sp. (strain ANA-3)

     234        465  Anabaena variabilis (strain ATCC 29413 / PCC 7937)

     235        464  Aeromonas hydrophila subsp. hydrophila 

     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 necator (strain JMP 134 / LMG 1197) (Ralstonia eutropha 

     240        458  Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath)

     241        457  Ovis aries (Sheep)

     242        457  Rickettsia felis (strain ATCC VR-1525 / URRWXCal2) (Rickettsia azadi)

     243        455  Staphylococcus aureus (strain JH1)

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

     245        453  Pseudomonas putida (strain W619)

     246        452  Streptococcus mutans serotype c (strain ATCC 700610 / UA159)

     247        452  Aeromonas salmonicida (strain A449)

     248        452  Shewanella baltica (strain OS185)

     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           19467 (  4%)

    Bacteria         333223 ( 60%)

    Eukaryota        186158 ( 34%)

    Viruses           16746 (  3%)





   Within Eukaryota:



   



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

     Human                  20238 ( 11%)           (  4%)

     Other Mammalia         46521 ( 25%)           (  8%)

     Other Vertebrata       18149 ( 10%)           (  3%)

     Viridiplantae          39066 ( 21%)           (  7%)

     Fungi                  32838 ( 18%)           (  6%)

     Insecta                 9096 (  5%)           (  2%)

     Nematoda                4839 (  3%)           (  1%)

     Other                  15411 (  8%)           (  3%)







3.  SEQUENCE SIZE



   Repartition of the sequences by size (excluding fragments)



               From   To  Number             From   To   Number

                  1-  50    9349             1001-1100     3954

                 51- 100   42333             1101-1200     2778

                101- 150   58771             1201-1300     2126

                151- 200   58715             1301-1400     1976

                201- 250   57561             1401-1500     1585

                251- 300   51225             1501-1600      775

                301- 350   51575             1601-1700      602

                351- 400   44749             1701-1800      522

                401- 450   36775             1801-1900      462

                451- 500   29586             1901-2000      369

                501- 550   21283             2001-2100      242

                551- 600   15194             2101-2200      318

                601- 650   12711             2201-2300      307

                651- 700    9162             2301-2400      199

                701- 750    7608             2401-2500      154

                751- 800    5453             >2500         1225

                801- 850    4737

                851- 900    5182

                901- 950    4013

                951-1000    2884



   





   The average sequence length in UniProtKB/Swiss-Prot is 358 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: 2676





   4.1 Table of the frequency of journal citations



        Journals cited 1x:  854

                       2x:  370

                       3x:  168

                       4x:  132

                       5x:  101

                       6x:   92

                       7x:   61

                       8x:   55

                       9x:   40

                      10x:   30

                  11- 20x:  212

                  21- 50x:  220

                  51-100x:  117

                    >100x:  224





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



   Nb    Citations   Journal name

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

    1        23941   Journal of Biological Chemistry

    2        11029   Proceedings of the National Academy of Sciences of the U.S.A.

    3         6450   Journal of Bacteriology

    4         5506   Biochemical and Biophysical Research Communications

    5         5162   Biochemistry

    6         4931   Nucleic Acids Research

    7         4787   Gene

    8         4738   FEBS Letters

    9         4597   The EMBO Journal

   10         4332   Nature

   11         4276   Molecular and Cellular Biology

   12         4154   Journal of Molecular Biology

   13         3556   Biochimica et Biophysica Acta

   14         3464   Cell

   15         3366   European Journal of Biochemistry

   16         3032   Journal of Virology

   17         2914   Science

   18         2796   Biochemical Journal

   19         2529   Genomics

   20         2449   Plant Physiology

   21         2426   Molecular Microbiology

   22         2129   Journal of Cell Biology

   23         2048   The American Journal of Human Genetics

   24         1898   The Plant Cell

   25         1823   Plant Molecular Biology

   26         1791   Genes and Development

   27         1751   Human Molecular Genetics

   28         1745   The Plant Journal

   29         1709   Virology

   30         1703   Nature Genetics

   31         1664   PLoS ONE

   32         1618   Development

   33         1611   Molecular Biology of the Cell

   34         1530   Human Mutation

   35         1523   Oncogene

   36         1447   Molecular Cell

   37         1388   Molecular and General Genetics

   38         1368   Journal of Immunology

   39         1323   Journal of Biochemistry

   40         1282   Structure

   41         1275   Genetics

   42         1186   Journal of Cell Science

   43         1119   Blood

   44         1101   Journal of General Virology

   45         1092   Infection and Immunity

   46         1031   Microbiology

   47         1018   Archives of Biochemistry and Biophysics

   48         1013   Current Biology

   49          996   Developmental Biology

   50          870   Cancer Research

   51          861   Journal of Neuroscience

   52          846   Acta Crystallographica, Section D

   53          840   Applied and Environmental Microbiology

   54          831   Yeast

   55          821   FEMS Microbiology Letters

   56          753   Protein Science

   57          743   Toxicon

   58          703   Neuron

   59          701   Journal of Clinical Investigation

   60          674   Human Genetics

   61          655   American Journal of Physiology

   62          647   Plant and Cell Physiology

   63          642   Nature Structural Biology

   64          638   Mechanisms of Development

   65          607   The Journal of Experimental Medicine

   66          596   Proteins

   67          574   Journal of Medical Genetics

   68          565   Current Genetics

   69          546   Nature Cell Biology

   70          544   PLoS Genetics

   71          531   Bioscience, Biotechnology, and Biochemistry

   72          530   Molecular Endocrinology

   73          521   Journal of Neurochemistry

   74          509   The Journal of Clinical Endocrinology and Metabolism

   75          494   Nature Structural and Molecular Biology

   76          491   Endocrinology

   77          488   Mammalian Genome

   78          470   Developmental Cell

   79          468   The FEBS Journal

   80          466   Immunogenetics

   81          446   Molecular and Biochemical Parasitology

   82          440   Experimental Cell Research

   83          431   Antimicrobial Agents and Chemotherapy

   84          416   Eukaryotic Cell

   85          407   Journal of Molecular Evolution

   86          404   Planta

   87          400   Peptides

   88          398   RNA

   89          393   Molecular Biology and Evolution

   90          386   DNA and Cell Biology

   91          372   DNA Sequence

   92          359   Molecular Pharmacology

   93          352   Journal of Investigative Dermatology

   94          351   Neurology

   95          346   Journal of the American Chemical Society

   96          346   Journal of Experimental Botany

   97          345   Comparative Biochemistry and Physiology

   98          340   EMBO Reports

   99          337   Brain Research. Molecular Brain Research

  100          333   Biology of Reproduction

  101          330   The FASEB Journal

  102          329   Acta Crystallographica, Section F

  103          325   Tissue Antigens

  104          318   European Journal of Human Genetics

  105          317   Molecular Plant-Microbe Interactions

  106          313   Immunity

  107          307   Biochimie

  108          306   The New England Journal of Medicine

  109          305   American Journal of Medical Genetics. Part A

  110          304   Developmental Dynamics

  111          304   Genes to Cells

  112          297   Virus Research

  113          295   Biological Chemistry Hoppe-Seyler

  114          289   Genome Research

  115          288   PLoS Pathogens

  116          283   Nature Communications

  117          282   Cytogenetics and Cell Genetics

  118          276   Annals of Neurology

  119          275   Clinical Genetics

  120          269   Journal of General Microbiology

  121          257   BMC Genomics

  122          257   European Journal of Immunology

  123          256   Investigative Ophthalmology and Visual Science

  124          252   Nature Immunology

  125          244   Journal of Human Genetics

  126          239   Applied Microbiology and Biotechnology

  127          239   Journal of Medicinal Chemistry

  128          235   Archives of Microbiology

  129          228   DNA Research

  130          224   Journal of Cellular Biochemistry

  131          223   Glycobiology

  132          223   PLoS Biology

  133          218   Hoppe-Seyler's Zeitschrift fur Physiologische Chemie

  134          218   Traffic

  135          214   Molecular Genetics and Metabolism

  136          211   Circulation Research

  137          208   Cell Cycle

  138          206   Journal of Lipid Research

  139          205   Archives of Virology

  140          204   Molecular and Cellular Endocrinology

  141          204   Molecular Immunology

  142          203   Diabetes

  143          198   Protein Expression and Purification

  144          194   Phytochemistry

  145          187   Nature Medicine

  146          184   Molecular Genetics and Genomics

  147          180   Insect Biochemistry and Molecular Biology

  148          179   International Journal of Cancer

  149          178   Molecular and Cellular Neuroscience

  150          173   Proteomics





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)                      1193127                 2.15                                         

   Journal                            999714     449523      1.80       1                                 

   Submitted to EMBL/GenBank/DDBJ     182817     160145      0.33       2                                 

   Submitted to other databases         7301       6756      0.01       3                                 

   Book citation                        1652       1629     <0.01       4                                 

   Plant Gene Register                   611        598     <0.01       5                                 

   Thesis                                430        427     <0.01       6                                 

   Unpublished observations              398        394     <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: 393233



                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Comments (CC)                        2472406                 4.45                                         

   ALLERGEN                              715        715     <0.01      26                                 

   ALTERNATIVE PRODUCTS                24961      24961      0.04      13                                 

   BIOPHYSICOCHEMICAL PROPERTIES        7740       7740      0.01      20                                 

   BIOTECHNOLOGY                         811        809     <0.01      25                                 

   CATALYTIC ACTIVITY                 264498     234875      0.48       5                                 

   CAUTION                             12454      12225      0.02      17                                 

   COFACTOR                           121057     111342      0.22       7                                 

   DEVELOPMENTAL STAGE                 11612      11612      0.02      19                                 

   DISEASE                              6676       4456      0.01      22                                 

   DISRUPTION PHENOTYPE                12401      12401      0.02      18                                 

   DOMAIN                              46631      40265      0.08       9                                 

   ENZYME REGULATION                   14057      14055      0.03      16                                 

   FUNCTION                           458298     438801      0.82       2                                 

   INDUCTION                           19648      19640      0.04      14                                 

   INTERACTION                         18494      18494      0.03      15                                 

   MASS SPECTROMETRY                    6518       4934      0.01      23                                 

   MISCELLANEOUS                       37465      34647      0.07      12                                 

   PATHWAY                            136831     124051      0.25       6                                 

   PHARMACEUTICAL                        103        103     <0.01      29                                 

   POLYMORPHISM                         1197       1141     <0.01      24                                 

   PTM                                 53501      40228      0.10       8                                 

   RNA EDITING                           627        627     <0.01      28                                 

   SEQUENCE CAUTION                    43850      43850      0.08      11                                 

   SIMILARITY                         503969     499825      0.91       1                                 

   SUBCELLULAR LOCATION               344875     337902      0.62       3                                 

   SUBUNIT                            271443     271215      0.49       4                                 

   TISSUE SPECIFICITY                  44458      44457      0.08      10                                 

   TOXIC DOSE                            643        594     <0.01      27                                 

   WEB RESOURCE                         6873       5706      0.01      21                                 



Total number of comment topics: 29





                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Features (FT)                        4364295                 7.86                                         

   ACT_SITE                           161255      97832      0.29      10                                 

   BINDING                            392846     103217      0.71       2                                 

   CA_BIND                              4162       1723      0.01      36                                 

   CARBOHYD                           114405      29337      0.21      15                                 

   CHAIN                              563212     548816      1.01       1                                 

   COILED                              21834      15094      0.04      27                                 

   COMPBIAS                            58564      31463      0.11      19                                 

   CONFLICT                           134153      46939      0.24      13                                 

   CROSSLNK                            23144       8258      0.04      26                                 

   DISULFID                           121343      32803      0.22      14                                 

   DNA_BIND                            11522      10430      0.02      32                                 

   DOMAIN                             188974     116170      0.34       9                                 

   HELIX                              235847      22013      0.42       7                                 

   INIT_MET                            16979      16979      0.03      28                                 

   INTRAMEM                             2583       1142     <0.01      37                                 

   LIPID                               12837       8290      0.02      30                                 

   METAL                              371969      92730      0.67       3                                 

   MOD_RES                            242587      71009      0.44       6                                 

   MOTIF                               41959      27319      0.08      23                                 

   MUTAGEN                             63576      14179      0.11      18                                 

   NON_CONS                             2248        783     <0.01      38                                 

   NON_STD                               360        285     <0.01      39                                 

   NON_TER                             12284       9397      0.02      31                                 

   NP_BIND                            153066      84157      0.28      11                                 

   PEPTIDE                             11176       7658      0.02      33                                 

   PROPEP                              13834      11854      0.02      29                                 

   REGION                             189367      89942      0.34       8                                 

   REPEAT                             102887      14616      0.19      16                                 

   SIGNAL                              41143      41133      0.07      24                                 

   SITE                                55189      30847      0.10      21                                 

   STRAND                             245961      20730      0.44       5                                 

   TOPO_DOM                           138491      28410      0.25      12                                 

   TRANSIT                              8942       8828      0.02      34                                 

   TRANSMEM                           367836      76652      0.66       4                                 

   TURN                                56683      17831      0.10      20                                 

   UNSURE                               4395        773      0.01      35                                 

   VAR_SEQ                             51633      21808      0.09      22                                 

   VARIANT                             94783      16975      0.17      17                                 

   ZN_FING                             30266      13307      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)               17955100                32.32                                                           

   Allergome                            1729       1128     <0.01     118      Protein family/group databases               

   ArachnoServer                        1147       1138     <0.01     125      Organism-specific databases                  

   Araport                             15499      15406      0.03      82      Organism-specific databases                  

   Bgee                                55914      55913      0.10      44      Gene expression databases                    

   BindingDB                            4901       4901      0.01     102      Chemistry                                    

   BioCyc                              44321      41008      0.08      52      Enzyme and pathway databases                 

   BioGrid                             49574      49097      0.09      47      Protein-protein interaction databases        

   BioMuta                             17243      17238      0.03      76      Polymorphism and mutation databases          

   BRENDA                              12840      12068      0.02      85      Enzyme and pathway databases                 

   CAZy                                 9428       8503      0.02      89      Protein family/group databases               

   CCDS                                47571      33845      0.09      49      Sequence databases                           

   CDD                                165403     153653      0.30      25      Family and domain databases                  

   CGD                                  1977       1960     <0.01     116      Organism-specific databases                  

   ChEMBL                               6521       6521      0.01      92      Chemistry                                    

   ChiTaRS                             16517      16509      0.03      79      Other                                        

   CleanEx                             30024      29394      0.05      58      Gene expression databases                    

   CollecTF                              133        133     <0.01     144      Gene expression databases                    

   COMPLUYEAST-2DPAGE                     97         97     <0.01     145      2D gel databases                             

   ConoServer                            949        866     <0.01     126      Organism-specific databases                  

   CORUM                                5168       5168      0.01      99      Protein-protein interaction databases        

   CTD                                 74531      73758      0.13      42      Organism-specific databases                  

   DEPOD                                 239        239     <0.01     141      PTM databases                                

   dictyBase                            4210       4095      0.01     106      Organism-specific databases                  

   DIP                                 17318      17287      0.03      75      Protein-protein interaction databases        

   DisGeNET                            14857      14620      0.03      83      Organism-specific databases                  

   DisProt                               707        702     <0.01     130      3D structure databases                       

   DMDM                                16365      16301      0.03      80      Polymorphism and mutation databases          

   DNASU                               18937      18866      0.03      71      Protocols and materials databases            

   DOSAC-COBS-2DPAGE                     145        145     <0.01     142      2D gel databases                             

   DrugBank                            18744       3634      0.03      72      Chemistry                                    

   EchoBASE                             4159       4159      0.01     107      Organism-specific databases                  

   EcoGene                              4293       4291      0.01     104      Organism-specific databases                  

   eggNOG                             662087     330353      1.19       5      Phylogenomic databases                       

   ELM                                  1808       1808     <0.01     117      Protein-protein interaction databases        

   EMBL                               989750     544081      1.78       3      Sequence databases                           

   Ensembl                             86683      49186      0.16      40      Genome annotation databases                  

   EnsemblBacteria                    354201     335115      0.64      16      Genome annotation databases                  

   EnsemblFungi                        29426      27653      0.05      61      Genome annotation databases                  

   EnsemblMetazoa                      15679      10471      0.03      81      Genome annotation databases                  

   EnsemblPlants                       26366      19824      0.05      64      Genome annotation databases                  

   EnsemblProtists                      5004       4827      0.01     101      Genome annotation databases                  

   EPD                                 20270      20270      0.04      68      Proteomic databases                          

   ESTHER                               2482       2479     <0.01     113      Protein family/group databases               

   euHCVdb                                55         44     <0.01     147      Organism-specific databases                  

   EuPathDB                            37411      37230      0.07      55      Organism-specific databases                  

   EvolutionaryTrace                   16597      16597      0.03      78      Other                                        

   ExpressionAtlas                     38192      38192      0.07      54      Gene expression databases                    

   FlyBase                              6164       5809      0.01      94      Organism-specific databases                  

   Gene3D                             321139     262157      0.58      19      Family and domain databases                  

   GeneCards                           20331      19938      0.04      67      Organism-specific databases                  

   GeneDB                                567        511     <0.01     134      Genome annotation databases                  

   GeneID                             290168     279543      0.52      22      Genome annotation databases                  

   GeneReviews                          1156       1153     <0.01     124      Organism-specific databases                  

   GeneTree                            58167      58129      0.10      43      Phylogenomic databases                       

   Genevisible                         55186      55186      0.10      45      Gene expression databases                    

   GeneWiki                            10367      10283      0.02      88      Other                                        

   GenomeRNAi                          21960      21958      0.04      65      Other                                        

   GO                                2800437     528600      5.04       1      Ontologies                                   

   Gramene                             26498      19938      0.05      63      Genome annotation databases                  

   GuidetoPHARMACOLOGY                  1995       1995     <0.01     115      Chemistry                                    

   H-InvDB                              5588       4767      0.01      98      Organism-specific databases                  

   HAMAP                              328641     326013      0.59      18      Family and domain databases                  

   HGNC                                20171      20028      0.04      69      Organism-specific databases                  

   HOGENOM                            390458     390458      0.70      15      Phylogenomic databases                       

   HOVERGEN                            75843      75843      0.14      41      Phylogenomic databases                       

   HPA                                 27057      16798      0.05      62      Organism-specific databases                  

   IMGT_GENE-DB                          141        141     <0.01     143      Protein family/group databases               

   InParanoid                         136576     136576      0.25      29      Phylogenomic databases                       

   IntAct                              50707      50707      0.09      46      Protein-protein interaction databases        

   InterPro                          1966053     536646      3.54       2      Family and domain databases                  

   iPTMnet                             45970      45970      0.08      50      PTM databases                                

   KEGG                               503269     474842      0.91       7      Genome annotation databases                  

   KO                                 400666     400222      0.72      14      Phylogenomic databases                       

   LegioList                             765        763     <0.01     129      Organism-specific databases                  

   Leproma                               672        669     <0.01     132      Organism-specific databases                  

   MaizeGDB                              510        505     <0.01     135      Organism-specific databases                  

   MalaCards                            4234       4219      0.01     105      Organism-specific databases                  

   MaxQB                               29716      29716      0.05      59      Proteomic databases                          

   MEROPS                              11338      11338      0.02      86      Protein family/group databases               

   MGI                                 16830      16790      0.03      77      Organism-specific databases                  

   MIM                                 20451      14772      0.04      66      Organism-specific databases                  

   MINT                                31875      31875      0.06      56      Protein-protein interaction databases        

   MoonProt                               63         63     <0.01     146      Protein family/group databases               

   mycoCLAP                              357        353     <0.01     140      Protein family/group databases               

   neXtProt                            20171      20171      0.04      70      Organism-specific databases                  

   OGP                                   374        374     <0.01     139      2D gel databases                             

   OMA                                402872     402872      0.73      13      Phylogenomic databases                       

   OpenTargets                         18139      17983      0.03      74      Organism-specific databases                  

   Orphanet                             6145       3287      0.01      95      Organism-specific databases                  

   OrthoDB                            292058     292058      0.53      21      Phylogenomic databases                       

   PANTHER                            225238     212190      0.41      23      Family and domain databases                  

   PATRIC                              91636      91636      0.16      39      Genome annotation databases                  

   PaxDb                              112442     112442      0.20      34      Proteomic databases                          

   PDB                                149860      25117      0.27      27      3D structure databases                       

   PDBsum                             149860      25117      0.27      26      3D structure databases                       

   PeptideAtlas                        31841      31841      0.06      57      Proteomic databases                          

   PeroxiBase                            772        756     <0.01     128      Protein family/group databases               

   Pfam                               754277     513594      1.36       4      Family and domain databases                  

   PharmGKB                            18374      18332      0.03      73      Organism-specific databases                  

   PhosphoSitePlus                     38579      38579      0.07      53      PTM databases                                

   PhylomeDB                           95464      95464      0.17      37      Phylogenomic databases                       

   PIR                                123808     113390      0.22      32      Sequence databases                           

   PIRSF                              108639     107614      0.20      36      Family and domain databases                  

   PMAP-CutDB                           1461       1461     <0.01     119      Other                                        

   PomBase                              5133       5129      0.01     100      Organism-specific databases                  

   PRIDE                              141658     141658      0.25      28      Proteomic databases                          

   PRINTS                             133330     117812      0.24      31      Family and domain databases                  

   PRO                                 94621      94621      0.17      38      Other                                        

   ProDom                              29634      29451      0.05      60      Family and domain databases                  

   ProMEX                                452        452     <0.01     137      Proteomic databases                          

   PROSITE                            459696     295003      0.83      10      Family and domain databases                  

   ProteinModelPortal                 447410     447410      0.81      11      3D structure databases                       

   Proteomes                          475039     452919      0.86       9      Other                                        

   PseudoCAP                            1324       1315     <0.01     120      Organism-specific databases                  

   Reactome                           117820      35522      0.21      33      Enzyme and pathway databases                 

   REBASE                                404        404     <0.01     138      Protein family/group databases               

   RefSeq                             609959     464694      1.10       6      Sequence databases                           

   REPRODUCTION-2DPAGE                  1259       1038     <0.01     121      2D gel databases                             

   RGD                                  7919       7918      0.01      90      Organism-specific databases                  

   SABIO-RK                             3648       3648      0.01     108      Enzyme and pathway databases                 

   SFLD                                11141       6434      0.02      87      Family and domain databases                  

   SGD                                  6739       6734      0.01      91      Organism-specific databases                  

   SignaLink                            3023       3023      0.01     111      Enzyme and pathway databases                 

   SIGNOR                               3587       3587      0.01     109      Enzyme and pathway databases                 

   SMART                              191019     141006      0.34      24      Family and domain databases                  

   SMR                                434521     434521      0.78      12      3D structure databases                       

   STRING                             331446     331446      0.60      17      Protein-protein interaction databases        

   SUPFAM                             490179     372302      0.88       8      Family and domain databases                  

   SWISS-2DPAGE                         1178       1178     <0.01     123      2D gel databases                             

   SwissLipids                          1207       1122     <0.01     122      Chemistry                                    

   SwissPalm                            5947       5947      0.01      96      PTM databases                                

   TAIR                                14311      14256      0.03      84      Organism-specific databases                  

   TCDB                                 6441       6406      0.01      93      Protein family/group databases               

   TIGRFAMs                           292467     272461      0.53      20      Family and domain databases                  

   TopDownProteomics                    3247       2967      0.01     110      Proteomic databases                          

   TreeFam                             45155      45147      0.08      51      Phylogenomic databases                       

   TubercuList                          2184       2148     <0.01     114      Organism-specific databases                  

   UCD-2DPAGE                            497        497     <0.01     136      2D gel databases                             

   UCSC                                49570      45343      0.09      48      Genome annotation databases                  

   UniCarbKB                             584        584     <0.01     133      PTM databases                                

   UniGene                            108820      95709      0.20      35      Sequence databases                           

   UniPathway                         136001     123234      0.24      30      Enzyme and pathway databases                 

   VectorBase                            674        587     <0.01     131      Genome annotation databases                  

   WBParaSite                             32         32     <0.01     148      Genome annotation databases                  

   World-2DPAGE                          929        918     <0.01     127      2D gel databases                             

   WormBase                             5874       4502      0.01      97      Organism-specific databases                  

   Xenbase                              4507       4501      0.01     103      Organism-specific databases                  

   ZFIN                                 2946       2946      0.01     112      Organism-specific databases                  



Total number of cross-referenced databases: 148



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) 6.61

   Arg (R) 5.53   Glu (E) 6.73   Lys (K) 5.82   Thr (T) 5.35

   Asn (N) 4.05   Gly (G) 7.08   Met (M) 2.41   Trp (W) 1.09

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

   Cys (C) 1.37   Ile (I) 5.93   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 3853 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: 78731