UniProtKB/Swiss-Prot protein knowledgebase release 2017_07 statistics





1.  INTRODUCTION



Release 2017_07 of 05-Jul-17 of UniProtKB/Swiss-Prot contains 555100 sequence entries,

comprising 198754198 amino acids abstracted from 253686 references. 



249 sequences have been added since release 2017_06, the sequence data of

6 existing entries has been updated and the annotations of

121324 entries have been revised.



Number of fragments: 9136

Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 39611





Protein existence (PE):           entries     %



1: Evidence at protein level        95697   17.2%

2: Evidence at transcript level     57690   10.4%

3: Inferred from homology          386143   69.6%

4: Predicted                        13710    2.5%

5: Uncertain                         1860    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: 13462



   The first twenty species represent 119399 sequences:  21.5 % of the total

   number of entries.





   2.1 Table of the frequency of occurrence of species



        Species represented 1x: 5588

                            2x: 1923

                            3x: 1051

                            4x:  670

                            5x:  497

                            6x:  405

                            7x:  288

                            8x:  240

                            9x:  232

                           10x:  135

                       11- 20x:  723

                       21- 50x:  444

                       51-100x:  217

                         >100x: 1049





   2.2  Table of the most represented species



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

  Number  Frequency  Species

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

       1      20214  Homo sapiens (Human)

       2      16909  Mus musculus (Mouse)

       3      15423  Arabidopsis thaliana (Mouse-ear cress)

       4       7993  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       4437  Escherichia coli (strain K12)

       9       4185  Bacillus subtilis (strain 168)

      10       4134  Dictyostelium discoideum (Slime mold)

      11       3924  Caenorhabditis elegans

      12       3827  Oryza sativa subsp. japonica (Rice)

      13       3471  Drosophila melanogaster (Fruit fly)

      14       3410  Xenopus laevis (African clawed frog)

      15       3008  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       1704  Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)

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

      26       1681  Shigella flexneri

      27       1419  Sus scrofa (Pig)

      28       1347  Salmonella typhi

      29       1312  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       1003  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        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        874  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        791  Escherichia coli (strain SMS-3-5 / SECEC)

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

      67        786  Zea mays (Maize)

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

      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        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        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        609  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  Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)

     147        593  Bacillus cereus (strain ATCC 10987 / NRS 248)

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

     158        569  Caulobacter crescentus (strain ATCC 19089 / CB15)

     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        546  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        522  Xylella fastidiosa (strain 9a5c)

     179        519  Corynebacterium glutamicum 

     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        510  Haemophilus ducreyi (strain 35000HP / ATCC 700724)

     188        510  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        502  Pseudomonas entomophila (strain L48)

     193        501  Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)

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

     195        497  Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 / JCM 12185 / C2A)

     196        497  Haemophilus influenzae (strain 86-028NP)

     197        497  Rickettsia conorii (strain ATCC VR-613 / Malish 7)

     198        496  Bacillus clausii (strain KSM-K16)

     199        495  Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)

     200        495  Burkholderia pseudomallei (strain K96243)

     201        494  Proteus mirabilis (strain HI4320)

     202        493  Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1)

     203        493  Xanthomonas campestris pv. campestris (strain 8004)

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

     223        474  Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337) 

     224        471  Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)

     225        470  Nicotiana tabacum (Common tobacco)

     226        468  Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)

     227        468  Clostridium perfringens (strain 13 / Type A)

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

     240        458  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  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           19463 (  4%)

    Bacteria         333146 ( 60%)

    Eukaryota        185767 ( 33%)

    Viruses           16724 (  3%)





   Within Eukaryota:



   



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

     Human                  20215 ( 11%)           (  4%)

     Other Mammalia         46497 ( 25%)           (  8%)

     Other Vertebrata       18134 ( 10%)           (  3%)

     Viridiplantae          38933 ( 21%)           (  7%)

     Fungi                  32711 ( 18%)           (  6%)

     Insecta                 9068 (  5%)           (  2%)

     Nematoda                4814 (  3%)           (  1%)

     Other                  15395 (  8%)           (  3%)







3.  SEQUENCE SIZE



   Repartition of the sequences by size (excluding fragments)



               From   To  Number             From   To   Number

                  1-  50    9304             1001-1100     3949

                 51- 100   42313             1101-1200     2768

                101- 150   58758             1201-1300     2125

                151- 200   58686             1301-1400     1975

                201- 250   57516             1401-1500     1584

                251- 300   51195             1501-1600      776

                301- 350   51534             1601-1700      601

                351- 400   44713             1701-1800      522

                401- 450   36736             1801-1900      461

                451- 500   29556             1901-2000      369

                501- 550   21238             2001-2100      242

                551- 600   15175             2101-2200      318

                601- 650   12693             2201-2300      306

                651- 700    9150             2301-2400      198

                701- 750    7605             2401-2500      153

                751- 800    5443             >2500         1205

                801- 850    4728

                851- 900    5179

                901- 950    4008

                951-1000    2882



   





   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: 2669





   4.1 Table of the frequency of journal citations



        Journals cited 1x:  858

                       2x:  362

                       3x:  166

                       4x:  133

                       5x:  103

                       6x:   94

                       7x:   62

                       8x:   51

                       9x:   38

                      10x:   30

                  11- 20x:  213

                  21- 50x:  218

                  51-100x:  119

                    >100x:  222





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



   Nb    Citations   Journal name

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

    1        23804   Journal of Biological Chemistry

    2        10955   Proceedings of the National Academy of Sciences of the U.S.A.

    3         6433   Journal of Bacteriology

    4         5480   Biochemical and Biophysical Research Communications

    5         5128   Biochemistry

    6         4915   Nucleic Acids Research

    7         4783   Gene

    8         4730   FEBS Letters

    9         4586   The EMBO Journal

   10         4303   Nature

   11         4271   Molecular and Cellular Biology

   12         4128   Journal of Molecular Biology

   13         3542   Biochimica et Biophysica Acta

   14         3447   Cell

   15         3363   European Journal of Biochemistry

   16         3011   Journal of Virology

   17         2887   Science

   18         2783   Biochemical Journal

   19         2528   Genomics

   20         2437   Plant Physiology

   21         2423   Molecular Microbiology

   22         2122   Journal of Cell Biology

   23         2040   The American Journal of Human Genetics

   24         1887   The Plant Cell

   25         1820   Plant Molecular Biology

   26         1788   Genes and Development

   27         1740   The Plant Journal

   28         1739   Human Molecular Genetics

   29         1698   Virology

   30         1696   Nature Genetics

   31         1629   PLoS ONE

   32         1612   Development

   33         1603   Molecular Biology of the Cell

   34         1529   Human Mutation

   35         1522   Oncogene

   36         1432   Molecular Cell

   37         1388   Molecular and General Genetics

   38         1355   Journal of Immunology

   39         1320   Journal of Biochemistry

   40         1276   Structure

   41         1267   Genetics

   42         1181   Journal of Cell Science

   43         1114   Blood

   44         1097   Journal of General Virology

   45         1091   Infection and Immunity

   46         1031   Microbiology

   47         1016   Archives of Biochemistry and Biophysics

   48         1011   Current Biology

   49          989   Developmental Biology

   50          868   Cancer Research

   51          852   Journal of Neuroscience

   52          833   Acta Crystallographica, Section D

   53          831   Yeast

   54          829   Applied and Environmental Microbiology

   55          819   FEMS Microbiology Letters

   56          749   Protein Science

   57          742   Toxicon

   58          699   Neuron

   59          698   Journal of Clinical Investigation

   60          673   Human Genetics

   61          647   American Journal of Physiology

   62          641   Plant and Cell Physiology

   63          640   Nature Structural Biology

   64          638   Mechanisms of Development

   65          602   The Journal of Experimental Medicine

   66          587   Proteins

   67          570   Journal of Medical Genetics

   68          565   Current Genetics

   69          544   Nature Cell Biology

   70          535   PLoS Genetics

   71          529   Molecular Endocrinology

   72          527   Bioscience, Biotechnology, and Biochemistry

   73          519   Journal of Neurochemistry

   74          508   The Journal of Clinical Endocrinology and Metabolism

   75          488   Endocrinology

   76          488   Mammalian Genome

   77          480   Nature Structural and Molecular Biology

   78          465   Immunogenetics

   79          460   Developmental Cell

   80          459   The FEBS Journal

   81          446   Molecular and Biochemical Parasitology

   82          438   Experimental Cell Research

   83          430   Antimicrobial Agents and Chemotherapy

   84          412   Eukaryotic Cell

   85          407   Journal of Molecular Evolution

   86          400   Peptides

   87          399   Planta

   88          396   RNA

   89          391   Molecular Biology and Evolution

   90          386   DNA and Cell Biology

   91          372   DNA Sequence

   92          357   Molecular Pharmacology

   93          352   Journal of Investigative Dermatology

   94          350   Neurology

   95          344   Comparative Biochemistry and Physiology

   96          339   Journal of the American Chemical Society

   97          337   Brain Research. Molecular Brain Research

   98          336   EMBO Reports

   99          335   Journal of Experimental Botany

  100          329   The FASEB Journal

  101          328   Biology of Reproduction

  102          325   Tissue Antigens

  103          319   Acta Crystallographica, Section F

  104          315   European Journal of Human Genetics

  105          312   Molecular Plant-Microbe Interactions

  106          312   Immunity

  107          306   The New England Journal of Medicine

  108          305   Biochimie

  109          304   Developmental Dynamics

  110          303   Genes to Cells

  111          300   American Journal of Medical Genetics. Part A

  112          295   Biological Chemistry Hoppe-Seyler

  113          295   Virus Research

  114          288   Genome Research

  115          283   PLoS Pathogens

  116          282   Cytogenetics and Cell Genetics

  117          275   Annals of Neurology

  118          270   Clinical Genetics

  119          269   Journal of General Microbiology

  120          260   Nature Communications

  121          256   BMC Genomics

  122          256   European Journal of Immunology

  123          254   Investigative Ophthalmology and Visual Science

  124          249   Nature Immunology

  125          242   Journal of Human Genetics

  126          235   Archives of Microbiology

  127          235   Applied Microbiology and Biotechnology

  128          235   Journal of Medicinal Chemistry

  129          228   DNA Research

  130          223   Journal of Cellular Biochemistry

  131          222   Glycobiology

  132          220   PLoS Biology

  133          218   Hoppe-Seyler's Zeitschrift fur Physiologische Chemie

  134          211   Traffic

  135          210   Molecular Genetics and Metabolism

  136          208   Cell Cycle

  137          206   Circulation Research

  138          205   Archives of Virology

  139          204   Molecular and Cellular Endocrinology

  140          204   Molecular Immunology

  141          204   Journal of Lipid Research

  142          203   Diabetes

  143          198   Protein Expression and Purification

  144          193   Phytochemistry

  145          185   Nature Medicine

  146          183   Molecular Genetics and Genomics

  147          180   Insect Biochemistry and Molecular Biology

  148          178   International Journal of Cancer

  149          178   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)                      1187525                 2.14                                         

   Journal                            993920     448641      1.79       1                                 

   Submitted to EMBL/GenBank/DDBJ     183042     160420      0.33       2                                 

   Submitted to other databases         7279       6741      0.01       3                                 

   Book citation                        1649       1626     <0.01       4                                 

   Plant Gene Register                   606        593     <0.01       5                                 

   Thesis                                429        426     <0.01       6                                 

   Unpublished observations              396        392     <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: 391112



                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Comments (CC)                        2462292                 4.44                                         

   ALLERGEN                              713        713     <0.01      26                                 

   ALTERNATIVE PRODUCTS                24909      24909      0.04      13                                 

   BIOPHYSICOCHEMICAL PROPERTIES        7634       7634      0.01      21                                 

   BIOTECHNOLOGY                         802        800     <0.01      25                                 

   CATALYTIC ACTIVITY                 263507     234665      0.47       5                                 

   CAUTION                             12391      12159      0.02      17                                 

   COFACTOR                           120947     111226      0.22       7                                 

   DEVELOPMENTAL STAGE                 11538      11538      0.02      19                                 

   DISEASE                              6643       4433      0.01      22                                 

   DISRUPTION PHENOTYPE                12164      12164      0.02      18                                 

   DOMAIN                              45677      39458      0.08       9                                 

   ENZYME REGULATION                   13976      13974      0.03      16                                 

   FUNCTION                           455937     436876      0.82       2                                 

   INDUCTION                           19508      19500      0.04      14                                 

   INTERACTION                         15931      15931      0.03      15                                 

   MASS SPECTROMETRY                    6467       4897      0.01      23                                 

   MISCELLANEOUS                       36652      33806      0.07      12                                 

   PATHWAY                            136701     123922      0.25       6                                 

   PHARMACEUTICAL                        102        102     <0.01      29                                 

   POLYMORPHISM                         1193       1137     <0.01      24                                 

   PTM                                 52981      39978      0.10       8                                 

   RNA EDITING                           627        627     <0.01      28                                 

   SEQUENCE CAUTION                    43799      43799      0.08      11                                 

   SIMILARITY                         503451     499309      0.91       1                                 

   SUBCELLULAR LOCATION               344264     337409      0.62       3                                 

   SUBUNIT                            270834     270617      0.49       4                                 

   TISSUE SPECIFICITY                  44285      44284      0.08      10                                 

   TOXIC DOSE                            642        593     <0.01      27                                 

   WEB RESOURCE                         8017       6802      0.01      20                                 



Total number of comment topics: 29





                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Features (FT)                        4332592                 7.81                                         

   ACT_SITE                           160860      97741      0.29      10                                 

   BINDING                            390300     102415      0.70       2                                 

   CA_BIND                              4144       1722      0.01      36                                 

   CARBOHYD                           113970      29245      0.21      15                                 

   CHAIN                              562691     548369      1.01       1                                 

   COILED                              21767      15029      0.04      26                                 

   COMPBIAS                            58491      31407      0.11      19                                 

   CONFLICT                           133998      46877      0.24      13                                 

   CROSSLNK                            12432       6149      0.02      30                                 

   DISULFID                           120386      32612      0.22      14                                 

   DNA_BIND                            11510      10419      0.02      32                                 

   DOMAIN                             188262     115542      0.34       8                                 

   HELIX                              234868      21924      0.42       7                                 

   INIT_MET                            18615      18615      0.03      27                                 

   INTRAMEM                             2666       1142     <0.01      37                                 

   LIPID                               12817       8273      0.02      29                                 

   METAL                              367643      91546      0.66       3                                 

   MOD_RES                            241202      70787      0.43       6                                 

   MOTIF                               40851      26282      0.07      24                                 

   MUTAGEN                             62444      13979      0.11      18                                 

   NON_CONS                             2248        783     <0.01      38                                 

   NON_STD                               360        285     <0.01      39                                 

   NON_TER                             12284       9396      0.02      31                                 

   NP_BIND                            150532      83391      0.27      11                                 

   PEPTIDE                             11111       7598      0.02      33                                 

   PROPEP                              13803      11827      0.02      28                                 

   REGION                             188064      89475      0.34       9                                 

   REPEAT                             102751      14583      0.19      16                                 

   SIGNAL                              41075      41065      0.07      23                                 

   SITE                                54563      30670      0.10      21                                 

   STRAND                             244985      20651      0.44       5                                 

   TOPO_DOM                           137877      28322      0.25      12                                 

   TRANSIT                              8909       8795      0.02      34                                 

   TRANSMEM                           366884      76505      0.66       4                                 

   TURN                                56471      17765      0.10      20                                 

   UNSURE                               4383        764      0.01      35                                 

   VAR_SEQ                             51563      21768      0.09      22                                 

   VARIANT                             94577      16962      0.17      17                                 

   ZN_FING                             30235      13290      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)               17836641                32.13                                                           

   Allergome                            1721       1124     <0.01     116      Protein family/group databases               

   ArachnoServer                        1147       1138     <0.01     123      Organism-specific databases                  

   Araport                             15443      15350      0.03      81      Organism-specific databases                  

   Bgee                                55181      55180      0.10      45      Gene expression databases                    

   BindingDB                            4878       4878      0.01     101      Chemistry                                    

   BioCyc                              44258      40945      0.08      52      Enzyme and pathway databases                 

   BioGrid                             48890      48421      0.09      47      Protein-protein interaction databases        

   BioMuta                             17243      17238      0.03      76      Polymorphism and mutation databases          

   BRENDA                              12828      12056      0.02      85      Enzyme and pathway databases                 

   CAZy                                 9423       8499      0.02      89      Protein family/group databases               

   CCDS                                47516      33792      0.09      49      Sequence databases                           

   CDD                                143304     135886      0.26      27      Family and domain databases                  

   CGD                                  1976       1959     <0.01     115      Organism-specific databases                  

   ChEMBL                               6215       6215      0.01      93      Chemistry                                    

   ChiTaRS                             16517      16509      0.03      79      Other                                        

   CleanEx                             30024      29394      0.05      57      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                                 74420      73650      0.13      42      Organism-specific databases                  

   DEPOD                                 239        239     <0.01     139      PTM databases                                

   dictyBase                            4210       4095      0.01     105      Organism-specific databases                  

   DIP                                 17294      17238      0.03      75      Protein-protein interaction databases        

   DisGeNET                            14914      14697      0.03      82      Organism-specific databases                  

   DisProt                               699        699     <0.01     128      3D structure databases                       

   DMDM                                16366      16302      0.03      80      Polymorphism and mutation databases          

   DNASU                               18923      18852      0.03      70      Protocols and materials databases            

   DOSAC-COBS-2DPAGE                     145        145     <0.01     140      2D gel databases                             

   DrugBank                            18743       3633      0.03      71      Chemistry                                    

   EchoBASE                             4161       4161      0.01     106      Organism-specific databases                  

   EcoGene                              4295       4293      0.01     103      Organism-specific databases                  

   eggNOG                             661597     330111      1.19       5      Phylogenomic databases                       

   EMBL                               989101     543638      1.78       3      Sequence databases                           

   Ensembl                             86490      49122      0.16      40      Genome annotation databases                  

   EnsemblBacteria                    354128     335045      0.64      16      Genome annotation databases                  

   EnsemblFungi                        29368      27600      0.05      58      Genome annotation databases                  

   EnsemblMetazoa                      14011      10281      0.03      84      Genome annotation databases                  

   EnsemblPlants                       24292      19663      0.04      63      Genome annotation databases                  

   EnsemblProtists                      5000       4823      0.01     100      Genome annotation databases                  

   EPD                                 20764      20764      0.04      65      Proteomic databases                          

   ESTHER                               2480       2477     <0.01     112      Protein family/group databases               

   euHCVdb                                55         44     <0.01     145      Organism-specific databases                  

   EuPathDB                            18251      18249      0.03      73      Organism-specific databases                  

   EvolutionaryTrace                   16587      16587      0.03      78      Other                                        

   ExpressionAtlas                     38163      38163      0.07      54      Gene expression databases                    

   FlyBase                              6158       5802      0.01      94      Organism-specific databases                  

   Gene3D                             318073     259573      0.57      19      Family and domain databases                  

   GeneCards                           20332      19939      0.04      67      Organism-specific databases                  

   GeneDB                                562        506     <0.01     132      Genome annotation databases                  

   GeneID                             290031     279370      0.52      22      Genome annotation databases                  

   GeneReviews                          1156       1153     <0.01     122      Organism-specific databases                  

   GeneTree                            55450      55417      0.10      43      Phylogenomic databases                       

   Genevisible                         55182      55182      0.10      44      Gene expression databases                    

   GeneWiki                            10367      10283      0.02      88      Other                                        

   GenomeRNAi                          21954      21952      0.04      64      Other                                        

   GO                                2787206     527820      5.02       1      Ontologies                                   

   Gramene                             24292      19663      0.04      62      Genome annotation databases                  

   GuidetoPHARMACOLOGY                  1991       1991     <0.01     114      Chemistry                                    

   H-InvDB                              5588       4767      0.01      98      Organism-specific databases                  

   HAMAP                              328491     325802      0.59      18      Family and domain databases                  

   HGNC                                20149      20005      0.04      69      Organism-specific databases                  

   HOGENOM                            390304     390304      0.70      15      Phylogenomic databases                       

   HOVERGEN                            75832      75832      0.14      41      Phylogenomic databases                       

   HPA                                 27060      16797      0.05      61      Organism-specific databases                  

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

   InParanoid                         136529     136529      0.25      29      Phylogenomic databases                       

   IntAct                              48091      48091      0.09      48      Protein-protein interaction databases        

   InterPro                          1948409     535707      3.51       2      Family and domain databases                  

   iPTMnet                             45965      45965      0.08      50      PTM databases                                

   KEGG                               503568     473972      0.91       7      Genome annotation databases                  

   KO                                 399340     398880      0.72      14      Phylogenomic databases                       

   LegioList                             765        763     <0.01     127      Organism-specific databases                  

   Leproma                               672        669     <0.01     129      Organism-specific databases                  

   MaizeGDB                              510        505     <0.01     133      Organism-specific databases                  

   MalaCards                            4234       4219      0.01     104      Organism-specific databases                  

   MaxQB                               29246      29246      0.05      59      Proteomic databases                          

   MEROPS                              11328      11328      0.02      86      Protein family/group databases               

   MGI                                 16816      16776      0.03      77      Organism-specific databases                  

   MIM                                 20384      14736      0.04      66      Organism-specific databases                  

   MINT                                31864      31864      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                            20172      20172      0.04      68      Organism-specific databases                  

   OGP                                   374        374     <0.01     137      2D gel databases                             

   OMA                                402610     402610      0.73      13      Phylogenomic databases                       

   OpenTargets                         18120      17963      0.03      74      Organism-specific databases                  

   Orphanet                             6145       3287      0.01      95      Organism-specific databases                  

   OrthoDB                            291791     291791      0.53      21      Phylogenomic databases                       

   PANTHER                            222281     209354      0.40      23      Family and domain databases                  

   PATRIC                              91599      91599      0.17      39      Genome annotation databases                  

   PaxDb                              112381     112380      0.20      34      Proteomic databases                          

   PDB                                148081      24970      0.27      26      3D structure databases                       

   PDBsum                             148081      24970      0.27      25      3D structure databases                       

   PeptideAtlas                        31821      31821      0.06      56      Proteomic databases                          

   PeroxiBase                            771        755     <0.01     126      Protein family/group databases               

   Pfam                               751641     511492      1.35       4      Family and domain databases                  

   PharmGKB                            18374      18332      0.03      72      Organism-specific databases                  

   PhosphoSitePlus                     38576      38576      0.07      53      PTM databases                                

   PhylomeDB                           95444      95444      0.17      37      Phylogenomic databases                       

   PIR                                123743     113328      0.22      32      Sequence databases                           

   PIRSF                              107198     106197      0.19      36      Family and domain databases                  

   PMAP-CutDB                           1461       1461     <0.01     117      Other                                        

   PomBase                              5133       5129      0.01      99      Organism-specific databases                  

   PRIDE                              141651     141651      0.26      28      Proteomic databases                          

   PRINTS                             133521     117977      0.24      31      Family and domain databases                  

   PRO                                 94619      94619      0.17      38      Other                                        

   ProDom                              29242      29059      0.05      60      Family and domain databases                  

   ProMEX                                450        450     <0.01     135      Proteomic databases                          

   PROSITE                            458425     294405      0.83      10      Family and domain databases                  

   ProteinModelPortal                 447267     447267      0.81      11      3D structure databases                       

   Proteomes                          475278     453230      0.86       9      Other                                        

   PseudoCAP                            1320       1311     <0.01     118      Organism-specific databases                  

   Reactome                           116577      35329      0.21      33      Enzyme and pathway databases                 

   REBASE                                407        407     <0.01     136      Protein family/group databases               

   RefSeq                             609246     464318      1.10       6      Sequence databases                           

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

   RGD                                  7917       7916      0.01      90      Organism-specific databases                  

   SABIO-RK                             3618       3618      0.01     107      Enzyme and pathway databases                 

   SFLD                                11138       6431      0.02      87      Family and domain databases                  

   SGD                                  6739       6734      0.01      91      Organism-specific databases                  

   SignaLink                            3022       3022      0.01     110      Enzyme and pathway databases                 

   SIGNOR                               3526       3526      0.01     108      Enzyme and pathway databases                 

   SMART                              190822     140867      0.34      24      Family and domain databases                  

   SMR                                431565     431565      0.78      12      3D structure databases                       

   STRING                             331239     331239      0.60      17      Protein-protein interaction databases        

   SUPFAM                             489636     371945      0.88       8      Family and domain databases                  

   SWISS-2DPAGE                         1178       1178     <0.01     121      2D gel databases                             

   SwissLipids                          1195       1111     <0.01     120      Chemistry                                    

   SwissPalm                            5947       5947      0.01      96      PTM databases                                

   TAIR                                14257      14202      0.03      83      Organism-specific databases                  

   TCDB                                 6401       6366      0.01      92      Protein family/group databases               

   TIGRFAMs                           292380     272382      0.53      20      Family and domain databases                  

   TopDownProteomics                    3247       2967      0.01     109      Proteomic databases                          

   TreeFam                             45129      45121      0.08      51      Phylogenomic databases                       

   TubercuList                          2184       2148     <0.01     113      Organism-specific databases                  

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

   UCSC                                49520      45300      0.09      46      Genome annotation databases                  

   UniCarbKB                             584        584     <0.01     131      PTM databases                                

   UniGene                            108172      95439      0.19      35      Sequence databases                           

   UniPathway                         135967     123201      0.24      30      Enzyme and pathway databases                 

   VectorBase                            663        585     <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                             5835       4477      0.01      97      Organism-specific databases                  

   Xenbase                              4502       4496      0.01     102      Organism-specific databases                  

   ZFIN                                 2850       2850      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) 6.61

   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 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: 78639