UniProtKB/Swiss-Prot protein knowledgebase release 2016_11 statistics





1.  INTRODUCTION



Release 2016_11 of 30-Nov-16 of UniProtKB/Swiss-Prot contains 553231 sequence entries,

comprising 197953409 amino acids abstracted from 249192 references. 



351 sequences have been added since release 2016_10, the sequence data of

15 existing entries has been updated and the annotations of

105059 entries have been revised.



Number of fragments: 9141

Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 39397





Protein existence (PE):           entries     %



1: Evidence at protein level        94314     17%

2: Evidence at transcript level     57836   10.5%

3: Inferred from homology          387896   70.1%

4: Predicted                        11235      2%

5: Uncertain                         1950    0.4%



The growth of the database is summarized below.



   





2.  TAXONOMIC ORIGIN



   Total number of species represented in this release of UniProtKB/Swiss-Prot: 13367



   The first twenty species represent 118517 sequences:  21.4 % of the total

   number of entries.





   2.1 Table of the frequency of occurrence of species



        Species represented 1x: 5542

                            2x: 1916

                            3x: 1049

                            4x:  668

                            5x:  490

                            6x:  402

                            7x:  295

                            8x:  239

                            9x:  219

                           10x:  128

                       11- 20x:  717

                       21- 50x:  437

                       51-100x:  216

                         >100x: 1049





   2.2  Table of the most represented species



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

  Number  Frequency  Species

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

       1      20129  Homo sapiens (Human)

       2      16839  Mus musculus (Mouse)

       3      15075  Arabidopsis thaliana (Mouse-ear cress)

       4       7973  Rattus norvegicus (Rat)

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

       6       5998  Bos taurus (Bovine)

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

       8       4434  Escherichia coli (strain K12)

       9       4185  Bacillus subtilis (strain 168)

      10       4132  Dictyostelium discoideum (Slime mold)

      11       3820  Caenorhabditis elegans

      12       3696  Oryza sativa subsp. japonica (Rice)

      13       3405  Xenopus laevis (African clawed frog)

      14       3401  Drosophila melanogaster (Fruit fly)

      15       2981  Danio rerio (Zebrafish) (Brachydanio rerio)

      16       2281  Gallus gallus (Chicken)

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

      18       2161  Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)

      19       2032  Escherichia coli O157:H7

      20       1894  Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)

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

      22       1787  Methanocaldococcus jannaschii  

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

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

      25       1690  Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)

      26       1680  Shigella flexneri

      27       1419  Sus scrofa (Pig)

      28       1347  Salmonella typhi

      29       1303  Pseudomonas aeruginosa 

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

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

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

      33       1027  Archaeoglobus fulgidus 

      34       1022  Yersinia pestis

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

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

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

      38        929  Staphylococcus aureus (strain Mu50 / ATCC 700699)

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

      40        926  Staphylococcus aureus (strain N315)

      41        910  Kluyveromyces lactis   

      42        909  Acanthamoeba polyphaga mimivirus (APMV)

      43        899  Staphylococcus aureus (strain COL)

      44        895  Staphylococcus aureus (strain MW2)

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

      46        891  Oryctolagus cuniculus (Rabbit)

      47        889  Staphylococcus aureus (strain MSSA476)

      48        888  Staphylococcus aureus (strain MRSA252)

      49        882  Salmonella choleraesuis (strain SC-B67)

      50        878  Shigella sonnei (strain Ss046)

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

      52        869  Emericella nidulans  

      53        863  Yersinia pseudotuberculosis serotype I (strain IP32953)

      54        862  Candida glabrata   

      55        853  Neurospora crassa 

      56        841  Escherichia coli O9:H4 (strain HS)

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

      58        829  Shigella boydii serotype 4 (strain Sb227)

      59        825  Escherichia coli (strain UTI89 / UPEC)

      60        822  Shigella dysenteriae serotype 1 (strain Sd197)

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

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

      63        802  Oryza sativa subsp. indica (Rice)

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

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

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

      67        784  Aquifex aeolicus (strain VF5)

      68        776  Pasteurella multocida (strain Pm70)

      69        775  Zea mays (Maize)

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

      71        771  Escherichia coli (strain K12 / DH10B)

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

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

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

      75        762  Escherichia coli (strain 55989 / EAEC)

      76        761  Escherichia coli O8 (strain IAI1)

      77        760  Shigella flexneri serotype 5b (strain 8401)

      78        759  Staphylococcus epidermidis (strain ATCC 35984 / RP62A)

      79        758  Staphylococcus epidermidis (strain ATCC 12228)

      80        756  Escherichia coli (strain SE11)

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

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

      83        753  Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) 

      84        752  Staphylococcus aureus (strain NCTC 8325)

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

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

      87        741  Bacillus anthracis

      88        741  Bacillus halodurans 

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

      90        733  Vibrio vulnificus (strain CMCP6)

      91        731  Escherichia coli O81 (strain ED1a)

      92        722  Salmonella enteritidis PT4 (strain P125109)

      93        718  Vibrio vulnificus (strain YJ016)

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

      95        715  Yersinia pestis bv. Antiqua (strain Nepal516)

      96        715  Enterobacter sp. (strain 638)

      97        714  Escherichia coli O1:K1 / APEC

      98        714  Salmonella paratyphi A (strain AKU_12601)

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

     100        713  Salmonella agona (strain SL483)

     101        713  Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)

     102        713  Salmonella newport (strain SL254)

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

     104        712  Salmonella schwarzengrund (strain CVM19633)

     105        711  Yersinia pestis bv. Antiqua (strain Antiqua)

     106        710  Salmonella heidelberg (strain SL476)

     107        702  Salmonella dublin (strain CT_02021853)

     108        698  Klebsiella pneumoniae (strain 342)

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

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

     111        693  Pan troglodytes (Chimpanzee)

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

     113        687  Mycoplasma pneumoniae (strain ATCC 29342 / M129)

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

     115        679  Pseudomonas syringae pv. tomato (strain ATCC BAA-871 / DC3000)

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

     117        672  Staphylococcus aureus (strain USA300)

     118        670  Serratia proteamaculans (strain 568)

     119        670  Escherichia coli

     120        669  Mycobacterium leprae (strain TN)

     121        667  Yersinia pestis (strain Pestoides F)

     122        665  Bacillus cereus 

     123        661  Bradyrhizobium diazoefficiens 

     124        658  Sinorhizobium fredii (strain NBRC 101917 / NGR234)

     125        653  Debaryomyces hansenii   

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

     127        645  Shewanella oneidensis (strain MR-1)

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

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

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

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

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

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

     134        620  Methanothermobacter thermautotrophicus  

     135        620  Treponema pallidum (strain Nichols)

     136        613  Staphylococcus haemolyticus (strain JCSC1435)

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

     138        608  Xanthomonas campestris pv. campestris 

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

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

     141        602  Photobacterium profundum (strain SS9)

     142        602  Staphylococcus saprophyticus subsp. saprophyticus 

     143        601  Salmonella paratyphi C (strain RKS4594)

     144        600  Yersinia pestis bv. Antiqua (strain Angola)

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

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

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

     148        591  Pseudomonas aeruginosa (strain UCBPP-PA14)

     149        591  Pectobacterium carotovorum subsp. carotovorum (strain PC1)

     150        586  Rickettsia prowazekii (strain Madrid E)

     151        580  Neisseria meningitidis serogroup B (strain MC58)

     152        579  Brucella suis biovar 1 (strain 1330)

     153        577  Caenorhabditis briggsae

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

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

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

     157        568  Caulobacter crescentus (strain ATCC 19089 / CB15)

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

     159        567  Vibrio fischeri (strain ATCC 700601 / ES114)

     160        567  Pseudomonas syringae pv. syringae (strain B728a)

     161        564  Bacillus licheniformis 

     162        562  Bacillus cereus (strain ZK / E33L)

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

     164        559  Clostridium acetobutylicum 

     165        556  Xanthomonas axonopodis pv. citri (strain 306)

     166        553  Oceanobacillus iheyensis 

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

     168        552  Pseudomonas fluorescens (strain Pf0-1)

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

     170        546  Pseudomonas savastanoi pv. phaseolicola  (Pseudomonas syringae pv. phaseolicola 

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

     172        542  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        525  Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50) 

     178        522  Xylella fastidiosa (strain 9a5c)

     179        518  Corynebacterium glutamicum 

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

     181        517  Chromobacterium violaceum 

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

     183        515  Xylella fastidiosa (strain Temecula1 / ATCC 700964)

     184        512  Deinococcus radiodurans 

     185        512  Pseudomonas aeruginosa (strain PA7)

     186        511  Staphylococcus aureus (strain Newman)

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

     188        509  Geobacillus kaustophilus (strain HTA426)

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

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

     191        506  Streptomyces avermitilis 

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

     193        500  Pseudomonas entomophila (strain L48)

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

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

     196        496  Bacillus clausii (strain KSM-K16)

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

     198        495  Burkholderia pseudomallei (strain K96243)

     199        495  Haemophilus influenzae (strain 86-028NP)

     200        494  Proteus mirabilis (strain HI4320)

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

     202        493  Xanthomonas campestris pv. campestris (strain 8004)

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

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

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

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

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

     208        487  Methanosarcina mazei  

     209        487  Shewanella sp. (strain MR-7)

     210        486  Mannheimia succiniciproducens (strain MBEL55E)

     211        484  Pseudomonas aeruginosa (strain LESB58)

     212        484  Staphylococcus aureus (strain Mu3 / ATCC 700698)

     213        484  Thermosynechococcus elongatus (strain BP-1)

     214        484  Shewanella sp. (strain MR-4)

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

     216        482  Pyrococcus horikoshii 

     217        482  Brucella abortus (strain 2308)

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

     224        468  Nicotiana tabacum (Common tobacco)

     225        468  Clostridium perfringens (strain 13 / Type A)

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

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

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

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

     230        466  Shewanella frigidimarina (strain NCIMB 400)

     231        466  Pseudomonas putida (strain GB-1)

     232        466  Shewanella sp. (strain ANA-3)

     233        464  Aeromonas hydrophila subsp. hydrophila 

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

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

     236        462  Burkholderia mallei (strain ATCC 23344)

     237        462  Enterococcus faecalis (strain ATCC 700802 / V583)

     238        461  Campylobacter jejuni subsp. jejuni serotype O:2 

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

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

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

     242        456  Ovis aries (Sheep)

     243        455  Staphylococcus aureus (strain JH1)

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

     245        453  Pseudomonas putida (strain W619)

     246        452  Aeromonas salmonicida (strain A449)

     247        452  Shewanella baltica (strain OS185)

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

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

     250        450  Dechloromonas aromatica (strain RCB)





   

   2.3  Taxonomic distribution of the sequences



   



   Kingdom        sequences (% of the database)

    Archaea           19401 (  4%)

    Bacteria         332868 ( 60%)

    Eukaryota        184289 ( 33%)

    Viruses           16673 (  3%)





   Within Eukaryota:



   



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

     Human                  20130 ( 11%)           (  4%)

     Other Mammalia         46382 ( 25%)           (  8%)

     Other Vertebrata       17960 ( 10%)           (  3%)

     Viridiplantae          38327 ( 21%)           (  7%)

     Fungi                  32550 ( 18%)           (  6%)

     Insecta                 8986 (  5%)           (  2%)

     Nematoda                4708 (  3%)           (  1%)

     Other                  15246 (  8%)           (  3%)







3.  SEQUENCE SIZE



   Repartition of the sequences by size (excluding fragments)



               From   To  Number             From   To   Number

                  1-  50    9202             1001-1100     3919

                 51- 100   42161             1101-1200     2751

                101- 150   58549             1201-1300     2115

                151- 200   58571             1301-1400     1967

                201- 250   57393             1401-1500     1576

                251- 300   51062             1501-1600      769

                301- 350   51377             1601-1700      595

                351- 400   44557             1701-1800      518

                401- 450   36608             1801-1900      453

                451- 500   29453             1901-2000      365

                501- 550   21138             2001-2100      237

                551- 600   15115             2101-2200      317

                601- 650   12638             2201-2300      304

                651- 700    9123             2301-2400      196

                701- 750    7559             2401-2500      153

                751- 800    5427             >2500         1185

                801- 850    4707

                851- 900    5166

                901- 950    3996

                951-1000    2868



   





   The average sequence length in UniProtKB/Swiss-Prot is 357 amino acids.



   The shortest sequence is   GWA_SEPOF (P83570):     2 amino acids.

   The longest sequence is  TITIN_MOUSE (A2ASS6): 35213 amino acids.





4.  JOURNAL CITATIONS



   Note: the following citation statistics reflect the number of distinct

         journal citations.



   Total number of journals cited in this release of UniProtKB/Swiss-Prot: 2625





   4.1 Table of the frequency of journal citations



        Journals cited 1x:  846

                       2x:  358

                       3x:  161

                       4x:  129

                       5x:  104

                       6x:   90

                       7x:   62

                       8x:   49

                       9x:   34

                      10x:   34

                  11- 20x:  211

                  21- 50x:  211

                  51-100x:  117

                    >100x:  219





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



   Nb    Citations   Journal name

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

    1        23531   Journal of Biological Chemistry

    2        10774   Proceedings of the National Academy of Sciences of the U.S.A.

    3         6351   Journal of Bacteriology

    4         5413   Biochemical and Biophysical Research Communications

    5         5055   Biochemistry

    6         4876   Nucleic Acids Research

    7         4761   Gene

    8         4682   FEBS Letters

    9         4552   The EMBO Journal

   10         4228   Nature

   11         4222   Molecular and Cellular Biology

   12         4074   Journal of Molecular Biology

   13         3504   Biochimica et Biophysica Acta

   14         3400   Cell

   15         3347   European Journal of Biochemistry

   16         2985   Journal of Virology

   17         2838   Science

   18         2746   Biochemical Journal

   19         2526   Genomics

   20         2400   Molecular Microbiology

   21         2347   Plant Physiology

   22         2094   Journal of Cell Biology

   23         1934   The American Journal of Human Genetics

   24         1816   The Plant Cell

   25         1799   Plant Molecular Biology

   26         1766   Genes and Development

   27         1700   Human Molecular Genetics

   28         1691   Virology

   29         1678   Nature Genetics

   30         1669   The Plant Journal

   31         1572   Development

   32         1557   Molecular Biology of the Cell

   33         1512   Oncogene

   34         1498   PLoS ONE

   35         1471   Human Mutation

   36         1397   Molecular Cell

   37         1384   Molecular and General Genetics

   38         1341   Journal of Immunology

   39         1311   Journal of Biochemistry

   40         1247   Genetics

   41         1243   Structure

   42         1152   Journal of Cell Science

   43         1105   Blood

   44         1091   Journal of General Virology

   45         1080   Infection and Immunity

   46         1019   Microbiology

   47         1000   Archives of Biochemistry and Biophysics

   48          970   Current Biology

   49          966   Developmental Biology

   50          859   Cancer Research

   51          826   Yeast

   52          823   Journal of Neuroscience

   53          816   Acta Crystallographica, Section D

   54          809   FEMS Microbiology Letters

   55          795   Applied and Environmental Microbiology

   56          733   Protein Science

   57          729   Toxicon

   58          688   Neuron

   59          685   Journal of Clinical Investigation

   60          665   Human Genetics

   61          639   Nature Structural Biology

   62          638   American Journal of Physiology

   63          635   Mechanisms of Development

   64          619   Plant and Cell Physiology

   65          593   The Journal of Experimental Medicine

   66          578   Proteins

   67          562   Current Genetics

   68          552   Journal of Medical Genetics

   69          528   Nature Cell Biology

   70          524   Molecular Endocrinology

   71          518   Bioscience, Biotechnology, and Biochemistry

   72          512   Journal of Neurochemistry

   73          500   The Journal of Clinical Endocrinology and Metabolism

   74          488   Mammalian Genome

   75          480   Endocrinology

   76          468   PLoS Genetics

   77          462   Immunogenetics

   78          451   Nature Structural and Molecular Biology

   79          447   The FEBS Journal

   80          445   Molecular and Biochemical Parasitology

   81          441   Developmental Cell

   82          437   Experimental Cell Research

   83          424   Antimicrobial Agents and Chemotherapy

   84          407   Journal of Molecular Evolution

   85          406   Eukaryotic Cell

   86          391   Peptides

   87          388   Molecular Biology and Evolution

   88          385   Planta

   89          384   RNA

   90          383   DNA and Cell Biology

   91          370   DNA Sequence

   92          349   Journal of Investigative Dermatology

   93          349   Molecular Pharmacology

   94          342   Neurology

   95          340   Comparative Biochemistry and Physiology

   96          335   Brain Research. Molecular Brain Research

   97          332   Journal of the American Chemical Society

   98          331   EMBO Reports

   99          325   Tissue Antigens

  100          320   Biology of Reproduction

  101          314   The FASEB Journal

  102          309   Molecular Plant-Microbe Interactions

  103          304   Immunity

  104          303   Journal of Experimental Botany

  105          302   Genes to Cells

  106          298   The New England Journal of Medicine

  107          298   Developmental Dynamics

  108          297   Biochimie

  109          297   Acta Crystallographica, Section F

  110          296   European Journal of Human Genetics

  111          295   Virus Research

  112          294   Biological Chemistry Hoppe-Seyler

  113          285   Genome Research

  114          282   Cytogenetics and Cell Genetics

  115          272   American Journal of Medical Genetics. Part A

  116          267   Journal of General Microbiology

  117          266   PLoS Pathogens

  118          261   Annals of Neurology

  119          254   Clinical Genetics

  120          254   European Journal of Immunology

  121          250   BMC Genomics

  122          244   Investigative Ophthalmology and Visual Science

  123          244   Nature Immunology

  124          237   Journal of Human Genetics

  125          234   Archives of Microbiology

  126          226   DNA Research

  127          225   Applied Microbiology and Biotechnology

  128          225   Journal of Medicinal Chemistry

  129          220   Journal of Cellular Biochemistry

  130          218   Hoppe-Seyler's Zeitschrift fur Physiologische Chemie

  131          217   Glycobiology

  132          209   PLoS Biology

  133          208   Traffic

  134          206   Molecular Genetics and Metabolism

  135          205   Archives of Virology

  136          204   Cell Cycle

  137          203   Circulation Research

  138          201   Molecular Immunology

  139          201   Diabetes

  140          200   Molecular and Cellular Endocrinology

  141          198   Nature Communications

  142          197   Journal of Lipid Research

  143          193   Protein Expression and Purification

  144          190   Phytochemistry

  145          180   Molecular Genetics and Genomics

  146          179   Insect Biochemistry and Molecular Biology

  147          179   Nature Medicine

  148          175   International Journal of Cancer

  149          174   Molecular and Cellular Neuroscience

  150          172   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)                      1169253                 2.11                                         

   Journal                            972669     442701      1.76       1                                 

   Submitted to EMBL/GenBank/DDBJ     186187     163860      0.34       2                                 

   Submitted to other databases         7210       6689      0.01       3                                 

   Book citation                        1565       1548     <0.01       4                                 

   Plant Gene Register                   600        588     <0.01       5                                 

   Thesis                                429        426     <0.01       6                                 

   Unpublished observations              390        386     <0.01       7                                 

   Patent                                197        193     <0.01       8                                 

   Worm Breeder's Gazette                  6          6     <0.01       9                                 



Total number of distinct authors cited in UniProtKB/Swiss-Prot: 383327



                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Comments (CC)                        2607449                 4.71                                         

   ALLERGEN                              708        708     <0.01      26                                 

   ALTERNATIVE PRODUCTS                24731      24731      0.04      13                                 

   BIOPHYSICOCHEMICAL PROPERTIES        7277       7277      0.01      21                                 

   BIOTECHNOLOGY                         774        772     <0.01      25                                 

   CATALYTIC ACTIVITY                 258195     232189      0.47       5                                 

   CAUTION                             12245      12032      0.02      17                                 

   COFACTOR                           119622     109928      0.22       7                                 

   DEVELOPMENTAL STAGE                 11238      11238      0.02      19                                 

   DISEASE                              6386       4258      0.01      22                                 

   DISRUPTION PHENOTYPE                11244      11244      0.02      18                                 

   DOMAIN                              44937      38900      0.08       9                                 

   ENZYME REGULATION                   13688      13686      0.02      16                                 

   FUNCTION                           450674     431981      0.81       2                                 

   INDUCTION                           18933      18926      0.03      14                                 

   INTERACTION                         15548      15548      0.03      15                                 

   MASS SPECTROMETRY                    6206       4687      0.01      23                                 

   MISCELLANEOUS                       35914      33084      0.06      12                                 

   PATHWAY                            136090     123357      0.25       6                                 

   PHARMACEUTICAL                         99         99     <0.01      29                                 

   POLYMORPHISM                         1119       1062     <0.01      24                                 

   PTM                                 51814      39281      0.09       8                                 

   RNA EDITING                           627        627     <0.01      28                                 

   SEQUENCE CAUTION                    43595      43595      0.08      10                                 

   SIMILARITY                         674772     528390      1.22       1                                 

   SUBCELLULAR LOCATION               341851     335036      0.62       3                                 

   SUBUNIT                            267032     266860      0.48       4                                 

   TISSUE SPECIFICITY                  43407      43406      0.08      11                                 

   TOXIC DOSE                            628        582     <0.01      27                                 

   WEB RESOURCE                         8095       6874      0.01      20                                 



Total number of comment topics: 29





                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Features (FT)                        4264860                 7.71                                         

   ACT_SITE                           158711      96729      0.29      10                                 

   BINDING                            378546      99586      0.68       2                                 

   CA_BIND                              4096       1706      0.01      36                                 

   CARBOHYD                           113097      28984      0.20      15                                 

   CHAIN                              560868     546737      1.01       1                                 

   COILED                              21632      14938      0.04      26                                 

   COMPBIAS                            58109      31160      0.11      19                                 

   CONFLICT                           133406      46613      0.24      13                                 

   CROSSLNK                            12475       6102      0.02      30                                 

   DISULFID                           119173      32534      0.22      14                                 

   DNA_BIND                            11362      10327      0.02      32                                 

   DOMAIN                             184862     112920      0.33       8                                 

   HELIX                              226187      21171      0.41       7                                 

   INIT_MET                            18373      18373      0.03      27                                 

   INTRAMEM                             2435       1066     <0.01      37                                 

   LIPID                               12783       8230      0.02      29                                 

   METAL                              361872      90342      0.65       4                                 

   MOD_RES                            239341      70558      0.43       5                                 

   MOTIF                               40819      26264      0.07      23                                 

   MUTAGEN                             59594      13458      0.11      18                                 

   NON_CONS                             2238        779     <0.01      38                                 

   NON_STD                               359        284     <0.01      39                                 

   NON_TER                             12219       9337      0.02      31                                 

   NP_BIND                            147639      82422      0.27      11                                 

   PEPTIDE                             10808       7354      0.02      33                                 

   PROPEP                              13576      11655      0.02      28                                 

   REGION                             183943      87409      0.33       9                                 

   REPEAT                             101593      14445      0.18      16                                 

   SIGNAL                              40667      40657      0.07      24                                 

   SITE                                53021      29547      0.10      21                                 

   STRAND                             235880      19960      0.43       6                                 

   TOPO_DOM                           137102      28241      0.25      12                                 

   TRANSIT                              9181       9068      0.02      34                                 

   TRANSMEM                           365100      76174      0.66       3                                 

   TURN                                54375      17158      0.10      20                                 

   UNSURE                               4372        761      0.01      35                                 

   VAR_SEQ                             51287      21624      0.09      22                                 

   VARIANT                             93624      17072      0.17      17                                 

   ZN_FING                             30135      13235      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)               17758108                32.10                                                           

   Allergome                            1712       1120     <0.01     113      Protein family/group databases               

   ArachnoServer                        1146       1136     <0.01     120      Organism-specific databases                  

   Bgee                                54917      54917      0.10      46      Gene expression databases                    

   BindingDB                            4741       4741      0.01      99      Chemistry                                    

   BioCyc                              71249      62654      0.13      43      Enzyme and pathway databases                 

   BioGrid                             48506      48052      0.09      48      Protein-protein interaction databases        

   BioMuta                             17245      17241      0.03      74      Polymorphism and mutation databases          

   BRENDA                              12796      12024      0.02      84      Enzyme and pathway databases                 

   CAZy                                 9399       8477      0.02      87      Protein family/group databases               

   CCDS                                47133      33688      0.09      50      Sequence databases                           

   CDD                                127939     124470      0.23      31      Family and domain databases                  

   CGD                                  1710       1693     <0.01     114      Organism-specific databases                  

   ChEMBL                               6218       6218      0.01      90      Chemistry                                    

   ChiTaRS                             16497      16487      0.03      78      Other                                        

   CleanEx                             30039      29399      0.05      58      Gene expression databases                    

   CollecTF                              133        133     <0.01     139      Gene expression databases                    

   COMPLUYEAST-2DPAGE                     99         98     <0.01     140      2D gel databases                             

   ConoServer                            949        866     <0.01     122      Organism-specific databases                  

   CTD                                 73939      73180      0.13      42      Organism-specific databases                  

   DEPOD                                 239        239     <0.01     137      PTM databases                                

   dictyBase                            4208       4093      0.01     102      Organism-specific databases                  

   DIP                                 17188      17132      0.03      75      Protein-protein interaction databases        

   DisGeNET                            14921      14702      0.03      81      Organism-specific databases                  

   DisProt                               605        602     <0.01     128      3D structure databases                       

   DMDM                                16370      16307      0.03      79      Polymorphism and mutation databases          

   DNASU                               18903      18831      0.03      71      Protocols and materials databases            

   DOSAC-COBS-2DPAGE                     146        146     <0.01     138      2D gel databases                             

   DrugBank                            11785       1910      0.02      85      Chemistry                                    

   EchoBASE                             4161       4161      0.01     103      Organism-specific databases                  

   EcoGene                              4294       4292      0.01     101      Organism-specific databases                  

   eggNOG                             659582     329124      1.19       5      Phylogenomic databases                       

   EMBL                               982887     541911      1.78       3      Sequence databases                           

   Ensembl                             85186      48766      0.15      40      Genome annotation databases                  

   EnsemblBacteria                    353676     334613      0.64      16      Genome annotation databases                  

   EnsemblFungi                        30970      28410      0.06      57      Genome annotation databases                  

   EnsemblMetazoa                      13576      10050      0.02      82      Genome annotation databases                  

   EnsemblPlants                       22380      19365      0.04      63      Genome annotation databases                  

   EnsemblProtists                      5002       4827      0.01      98      Genome annotation databases                  

   EPD                                 19910      19910      0.04      70      Proteomic databases                          

   ESTHER                               2460       2458     <0.01     110      Protein family/group databases               

   euHCVdb                                55         44     <0.01     142      Organism-specific databases                  

   EuPathDB                            18137      18134      0.03      73      Organism-specific databases                  

   EvolutionaryTrace                   16570      16567      0.03      77      Other                                        

   ExpressionAtlas                     32416      32416      0.06      54      Gene expression databases                    

   FlyBase                              6092       5730      0.01      93      Organism-specific databases                  

   Gene3D                             466651     346735      0.84      10      Family and domain databases                  

   GeneCards                           20011      19836      0.04      68      Organism-specific databases                  

   GeneDB                                404        365     <0.01     134      Genome annotation databases                  

   GeneID                             281094     271493      0.51      21      Genome annotation databases                  

   GeneReviews                          1156       1153     <0.01     119      Organism-specific databases                  

   GeneTree                            57645      57609      0.10      44      Phylogenomic databases                       

   Genevisible                         55166      55166      0.10      45      Gene expression databases                    

   GeneWiki                            10368      10282      0.02      86      Other                                        

   GenomeRNAi                          21888      21887      0.04      64      Other                                        

   GO                                2832353     525931      5.12       1      Ontologies                                   

   Gramene                             22380      19365      0.04      62      Genome annotation databases                  

   GuidetoPHARMACOLOGY                  1915       1915     <0.01     112      Chemistry                                    

   H-InvDB                              5588       4767      0.01      96      Organism-specific databases                  

   HAMAP                              326327     323532      0.59      18      Family and domain databases                  

   HGNC                                20063      19915      0.04      66      Organism-specific databases                  

   HOGENOM                            389624     389624      0.70      15      Phylogenomic databases                       

   HOVERGEN                            75752      75752      0.14      41      Phylogenomic databases                       

   HPA                                 26771      17133      0.05      61      Organism-specific databases                  

   InParanoid                         136284     136284      0.25      28      Phylogenomic databases                       

   IntAct                              47213      47213      0.09      49      Protein-protein interaction databases        

   InterPro                          1962802     533582      3.55       2      Family and domain databases                  

   iPTMnet                             45945      45945      0.08      51      PTM databases                                

   KEGG                               502848     472601      0.91       7      Genome annotation databases                  

   KO                                 397638     397180      0.72      14      Phylogenomic databases                       

   LegioList                             765        763     <0.01     125      Organism-specific databases                  

   Leproma                               672        669     <0.01     127      Organism-specific databases                  

   MaizeGDB                              506        501     <0.01     131      Organism-specific databases                  

   MalaCards                            3775       3773      0.01     104      Organism-specific databases                  

   MaxQB                               28579      28578      0.05      60      Proteomic databases                          

   MEROPS                              12978      12977      0.02      83      Protein family/group databases               

   MGI                                 16754      16710      0.03      76      Organism-specific databases                  

   MIM                                 20003      14588      0.04      69      Organism-specific databases                  

   MINT                                31809      31809      0.06      55      Protein-protein interaction databases        

   MoonProt                               63         63     <0.01     141      Protein family/group databases               

   mycoCLAP                              349        345     <0.01     136      Protein family/group databases               

   neXtProt                            20049      20049      0.04      67      Organism-specific databases                  

   OGP                                   375        375     <0.01     135      2D gel databases                             

   OMA                                413004     413004      0.75      13      Phylogenomic databases                       

   OpenTargets                         20438      18527      0.04      65      Organism-specific databases                  

   Orphanet                             6148       3289      0.01      92      Organism-specific databases                  

   OrthoDB                            262643     262643      0.47      22      Phylogenomic databases                       

   PANTHER                            176112     168809      0.32      24      Family and domain databases                  

   PATRIC                             308398     308363      0.56      19      Genome annotation databases                  

   PaxDb                              111286     111000      0.20      33      Proteomic databases                          

   PDB                                138232      24225      0.25      27      3D structure databases                       

   PDBsum                             138232      24225      0.25      26      3D structure databases                       

   PeptideAtlas                        31074      31074      0.06      56      Proteomic databases                          

   PeroxiBase                            771        755     <0.01     124      Protein family/group databases               

   Pfam                               747391     511547      1.35       4      Family and domain databases                  

   PharmGKB                            18378      18337      0.03      72      Organism-specific databases                  

   PhosphoSitePlus                     38570      38570      0.07      53      PTM databases                                

   PhylomeDB                           95165      95165      0.17      38      Phylogenomic databases                       

   PIR                                123378     112989      0.22      32      Sequence databases                           

   PIRSF                              104535     103495      0.19      37      Family and domain databases                  

   PMAP-CutDB                           1461       1461     <0.01     115      Other                                        

   PomBase                              5133       5129      0.01      97      Organism-specific databases                  

   PRIDE                              141562     141562      0.26      25      Proteomic databases                          

   PRINTS                             133987     118148      0.24      30      Family and domain databases                  

   PRO                                 90737      90737      0.16      39      Other                                        

   ProDom                              29183      29001      0.05      59      Family and domain databases                  

   ProMEX                                444        444     <0.01     132      Proteomic databases                          

   PROSITE                            455369     292567      0.82      12      Family and domain databases                  

   ProteinModelPortal                 456830     456830      0.83      11      3D structure databases                       

   Proteomes                          471508     450107      0.85       9      Other                                        

   PseudoCAP                            1311       1302     <0.01     116      Organism-specific databases                  

   Reactome                           108644      33545      0.20      35      Enzyme and pathway databases                 

   REBASE                                411        411     <0.01     133      Protein family/group databases               

   RefSeq                             606049     464711      1.10       6      Sequence databases                           

   REPRODUCTION-2DPAGE                  1259       1038     <0.01     117      2D gel databases                             

   RGD                                  7899       7896      0.01      88      Organism-specific databases                  

   SABIO-RK                             3385       3385      0.01     105      Enzyme and pathway databases                 

   SGD                                  6739       6734      0.01      89      Organism-specific databases                  

   SignaLink                            3008       3008      0.01     108      Enzyme and pathway databases                 

   SIGNOR                               3344       3344      0.01     106      Enzyme and pathway databases                 

   SMART                              190014     140240      0.34      23      Family and domain databases                  

   SMR                                109063     109063      0.20      34      3D structure databases                       

   STRING                             327056     327056      0.59      17      Protein-protein interaction databases        

   SUPFAM                             477543     363717      0.86       8      Family and domain databases                  

   SWISS-2DPAGE                         1180       1180     <0.01     118      2D gel databases                             

   SwissLipids                          1121       1042     <0.01     121      Chemistry                                    

   SwissPalm                            5948       5948      0.01      94      PTM databases                                

   TAIR                                15058      15002      0.03      80      Organism-specific databases                  

   TCDB                                 6165       6130      0.01      91      Protein family/group databases               

   TIGRFAMs                           292347     272325      0.53      20      Family and domain databases                  

   TopDownProteomics                    3223       2945      0.01     107      Proteomic databases                          

   TreeFam                             45033      45026      0.08      52      Phylogenomic databases                       

   TubercuList                          2179       2143     <0.01     111      Organism-specific databases                  

   UCD-2DPAGE                            508        499     <0.01     130      2D gel databases                             

   UCSC                                49289      45085      0.09      47      Genome annotation databases                  

   UniCarbKB                             584        584     <0.01     129      PTM databases                                

   UniGene                            107057      94583      0.19      36      Sequence databases                           

   UniPathway                         135482     122762      0.24      29      Enzyme and pathway databases                 

   VectorBase                            695        637     <0.01     126      Genome annotation databases                  

   WBParaSite                             30         30     <0.01     143      Genome annotation databases                  

   World-2DPAGE                          926        915     <0.01     123      2D gel databases                             

   WormBase                             5672       4366      0.01      95      Organism-specific databases                  

   Xenbase                              4450       4444      0.01     100      Organism-specific databases                  

   ZFIN                                 2818       2818      0.01     109      Organism-specific databases                  



Total number of cross-referenced databases: 143



6.  AMINO ACID COMPOSITION



   6.1  Composition in percent for the complete database



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

   Arg (R) 5.53   Glu (E) 6.74   Lys (K) 5.82   Thr (T) 5.35

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

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

   Cys (C) 1.37   Ile (I) 5.93   Pro (P) 4.72   Val (V) 6.87



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



   



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

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





   6.2  Classification of the amino acids by their frequency



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

   Phe, Tyr, Met, His, Cys, Trp





7.  MISCELLANEOUS STATISTICS



4464 entries are encoded on a mitochondrion, and 3846 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: 78255