UniProtKB/Swiss-Prot protein knowledgebase release 2016_07 statistics





1.  INTRODUCTION



Release 2016_07 of 06-Jul-16 of UniProtKB/Swiss-Prot contains 551705 sequence entries,

comprising 197114987 amino acids abstracted from 245756 references. 



323 sequences have been added since release 2016_06, the sequence data of

25 existing entries has been updated and the annotations of

103854 entries have been revised.



Number of fragments: 9155

Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 39213





Protein existence (PE):           entries     %



1: Evidence at protein level        92922   16.8%

2: Evidence at transcript level     57773   10.5%

3: Inferred from homology          387712   70.3%

4: Predicted                        11348    2.1%

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: 13328



   The first twenty species represent 117773 sequences:  21.3 % of the total

   number of entries.





   2.1 Table of the frequency of occurrence of species



        Species represented 1x: 5534

                            2x: 1909

                            3x: 1045

                            4x:  667

                            5x:  491

                            6x:  400

                            7x:  290

                            8x:  238

                            9x:  216

                           10x:  128

                       11- 20x:  716

                       21- 50x:  431

                       51-100x:  215

                         >100x: 1048





   2.2  Table of the most represented species



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

  Number  Frequency  Species

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

       1      20197  Homo sapiens (Human)

       2      16806  Mus musculus (Mouse)

       3      14754  Arabidopsis thaliana (Mouse-ear cress)

       4       7963  Rattus norvegicus (Rat)

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

       6       5998  Bos taurus (Bovine)

       7       5120  Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)

       8       4434  Escherichia coli (strain K12)

       9       4185  Bacillus subtilis (strain 168)

      10       4131  Dictyostelium discoideum (Slime mold)

      11       3731  Caenorhabditis elegans

      12       3517  Oryza sativa subsp. japonica (Rice)

      13       3402  Xenopus laevis (African clawed frog)

      14       3328  Drosophila melanogaster (Fruit fly)

      15       2967  Danio rerio (Zebrafish) (Brachydanio rerio)

      16       2274  Gallus gallus (Chicken)

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

      18       2106  Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)

      19       2030  Escherichia coli O157:H7

      20       1890  Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)

      21       1789  Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)

      22       1787  Methanocaldococcus jannaschii  

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

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

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

      26       1680  Shigella flexneri

      27       1416  Sus scrofa (Pig)

      28       1347  Salmonella typhi

      29       1301  Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228)

      30       1243  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        987  Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)

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

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

      38        929  Staphylococcus aureus (strain Mu50 / ATCC 700699)

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

      40        926  Staphylococcus aureus (strain N315)

      41        910  Kluyveromyces lactis   

      42        909  Acanthamoeba polyphaga mimivirus (APMV)

      43        899  Staphylococcus aureus (strain COL)

      44        895  Staphylococcus aureus (strain MW2)

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

      46        891  Oryctolagus cuniculus (Rabbit)

      47        889  Staphylococcus aureus (strain MSSA476)

      48        888  Staphylococcus aureus (strain MRSA252)

      49        882  Salmonella choleraesuis (strain SC-B67)

      50        878  Shigella sonnei (strain Ss046)

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

      52        863  Yersinia pseudotuberculosis serotype I (strain IP32953)

      53        862  Candida glabrata   

      54        850  Neurospora crassa 

      55        841  Escherichia coli O9:H4 (strain HS)

      56        834  Escherichia coli O139:H28 (strain E24377A / ETEC)

      57        829  Shigella boydii serotype 4 (strain Sb227)

      58        828  Emericella nidulans  

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

      64        790  Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672) 

      65        789  Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)

      66        784  Aquifex aeolicus (strain VF5)

      67        783  Oryza sativa subsp. indica (Rice)

      68        776  Pasteurella multocida (strain Pm70)

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

      70        771  Escherichia coli (strain K12 / DH10B)

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

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

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

      74        763  Zea mays (Maize)

      75        762  Escherichia coli (strain 55989 / EAEC)

      76        761  Escherichia coli O8 (strain IAI1)

      77        760  Shigella flexneri serotype 5b (strain 8401)

      78        759  Staphylococcus epidermidis (strain ATCC 35984 / RP62A)

      79        758  Staphylococcus epidermidis (strain ATCC 12228)

      80        756  Escherichia coli (strain SE11)

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

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

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

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

      85        743  Staphylococcus aureus (strain NCTC 8325)

      86        741  Bacillus anthracis

      87        741  Bacillus halodurans 

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

      89        733  Vibrio vulnificus (strain CMCP6)

      90        731  Escherichia coli O81 (strain ED1a)

      91        722  Salmonella enteritidis PT4 (strain P125109)

      92        718  Vibrio vulnificus (strain YJ016)

      93        716  Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7)

      94        715  Yersinia pestis bv. Antiqua (strain Nepal516)

      95        715  Enterobacter sp. (strain 638)

      96        714  Escherichia coli O1:K1 / APEC

      97        714  Salmonella paratyphi A (strain AKU_12601)

      98        713  Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)

      99        713  Salmonella agona (strain SL483)

     100        713  Salmonella newport (strain SL254)

     101        713  Yersinia pseudotuberculosis serotype O:1b (strain IP 31758)

     102        712  Salmonella schwarzengrund (strain CVM19633)

     103        711  Yersinia pestis bv. Antiqua (strain Antiqua)

     104        710  Salmonella heidelberg (strain SL476)

     105        707  Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100) 

     106        705  Pseudomonas putida (strain KT2440)

     107        702  Salmonella dublin (strain CT_02021853)

     108        698  Klebsiella pneumoniae (strain 342)

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

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

     111        693  Pan troglodytes (Chimpanzee)

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

     113        687  Mycoplasma pneumoniae (strain ATCC 29342 / M129)

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

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

     116        678  Pseudomonas syringae pv. tomato (strain DC3000)

     117        670  Serratia proteamaculans (strain 568)

     118        670  Escherichia coli

     119        669  Mycobacterium leprae (strain TN)

     120        667  Yersinia pestis (strain Pestoides F)

     121        666  Staphylococcus aureus (strain USA300)

     122        665  Bacillus cereus 

     123        661  Bradyrhizobium diazoefficiens 

     124        658  Sinorhizobium fredii (strain NBRC 101917 / NGR234)

     125        653  Debaryomyces hansenii   

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

     127        645  Shewanella oneidensis (strain MR-1)

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

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

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

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

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

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

     134        620  Methanothermobacter thermautotrophicus  

     135        620  Treponema pallidum (strain Nichols)

     136        613  Staphylococcus haemolyticus (strain JCSC1435)

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

     138        608  Xanthomonas campestris pv. campestris 

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

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

     141        602  Photobacterium profundum (strain SS9)

     142        602  Staphylococcus saprophyticus subsp. saprophyticus 

     143        601  Salmonella paratyphi C (strain RKS4594)

     144        600  Yersinia pestis bv. Antiqua (strain Angola)

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

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

     147        592  Listeria innocua serovar 6a (strain CLIP 11262)

     148        591  Pectobacterium carotovorum subsp. carotovorum (strain PC1)

     149        589  Pseudomonas aeruginosa (strain UCBPP-PA14)

     150        586  Rickettsia prowazekii (strain Madrid E)

     151        579  Neisseria meningitidis serogroup B (strain MC58)

     152        577  Caenorhabditis briggsae

     153        576  Brucella suis biovar 1 (strain 1330)

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

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

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

     157        568  Caulobacter crescentus (strain ATCC 19089 / CB15)

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

     159        567  Vibrio fischeri (strain ATCC 700601 / ES114)

     160        567  Pseudomonas syringae pv. syringae (strain B728a)

     161        564  Bacillus licheniformis 

     162        562  Bacillus cereus (strain ZK / E33L)

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

     164        559  Clostridium acetobutylicum 

     165        556  Xanthomonas axonopodis pv. citri (strain 306)

     166        553  Oceanobacillus iheyensis (strain DSM 14371 / JCM 11309 / KCTC 3954 / HTE831)

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

     168        552  Pseudomonas fluorescens (strain Pf0-1)

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

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

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

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

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

     174        529  Sodalis glossinidius (strain morsitans)

     175        529  Listeria monocytogenes serotype 4b (strain F2365)

     176        525  Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50) 

     177        525  Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)

     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  Pseudomonas aeruginosa (strain PA7)

     185        511  Deinococcus radiodurans 

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

     187        509  Geobacillus kaustophilus (strain HTA426)

     188        508  Staphylococcus aureus (strain Newman)

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

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

     191        506  Streptomyces avermitilis 

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

     193        500  Pseudomonas entomophila (strain L48)

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

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

     196        496  Bacillus clausii (strain KSM-K16)

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

     198        495  Burkholderia pseudomallei (strain K96243)

     199        495  Haemophilus influenzae (strain 86-028NP)

     200        494  Proteus mirabilis (strain HI4320)

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

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

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

     204        491  Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1) 

     205        491  Xanthomonas campestris pv. campestris (strain 8004)

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

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

     208        487  Methanosarcina mazei  

     209        487  Shewanella sp. (strain MR-7)

     210        486  Mannheimia succiniciproducens (strain MBEL55E)

     211        484  Pseudomonas aeruginosa (strain LESB58)

     212        484  Staphylococcus aureus (strain Mu3 / ATCC 700698)

     213        484  Thermosynechococcus elongatus (strain BP-1)

     214        484  Shewanella sp. (strain MR-4)

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

     216        482  Pyrococcus horikoshii 

     217        482  Brucella abortus (strain 2308)

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

     219        478  Pseudomonas putida (strain F1 / ATCC 700007)

     220        477  Streptococcus pneumoniae (strain ATCC BAA-255 / R6)

     221        477  Pyrococcus abyssi (strain GE5 / Orsay)

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

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

     224        468  Clostridium perfringens (strain 13 / Type A)

     225        467  Nicotiana tabacum (Common tobacco)

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

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

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

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

     230        466  Shewanella frigidimarina (strain NCIMB 400)

     231        466  Pseudomonas putida (strain GB-1)

     232        466  Shewanella sp. (strain ANA-3)

     233        464  Aeromonas hydrophila subsp. hydrophila 

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

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

     236        462  Burkholderia mallei (strain ATCC 23344)

     237        462  Enterococcus faecalis (strain ATCC 700802 / V583)

     238        461  Campylobacter jejuni subsp. jejuni serotype O:2 

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

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

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

     242        455  Staphylococcus aureus (strain JH1)

     243        455  Ovis aries (Sheep)

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

     245        453  Pseudomonas putida (strain W619)

     246        452  Aeromonas salmonicida (strain A449)

     247        452  Shewanella baltica (strain OS185)

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

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

     250        450  Dechloromonas aromatica (strain RCB)





   

   2.3  Taxonomic distribution of the sequences



   



   Kingdom        sequences (% of the database)

    Archaea           19389 (  4%)

    Bacteria         332662 ( 60%)

    Eukaryota        183024 ( 33%)

    Viruses           16630 (  3%)





   Within Eukaryota:



   



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

     Human                  20198 ( 11%)           (  4%)

     Other Mammalia         46327 ( 25%)           (  8%)

     Other Vertebrata       17910 ( 10%)           (  3%)

     Viridiplantae          37748 ( 21%)           (  7%)

     Fungi                  32106 ( 18%)           (  6%)

     Insecta                 8891 (  5%)           (  2%)

     Nematoda                4618 (  3%)           (  1%)

     Other                  15226 (  8%)           (  3%)







3.  SEQUENCE SIZE



   Repartition of the sequences by size (excluding fragments)



               From   To  Number             From   To   Number

                  1-  50    9155             1001-1100     3895

                 51- 100   42110             1101-1200     2734

                101- 150   58507             1201-1300     2102

                151- 200   58472             1301-1400     1958

                201- 250   57325             1401-1500     1567

                251- 300   50953             1501-1600      764

                301- 350   51231             1601-1700      590

                351- 400   44393             1701-1800      505

                401- 450   36442             1801-1900      446

                451- 500   29354             1901-2000      365

                501- 550   21018             2001-2100      225

                551- 600   15024             2101-2200      309

                601- 650   12593             2201-2300      303

                651- 700    9089             2301-2400      190

                701- 750    7530             2401-2500      148

                751- 800    5412             >2500         1164

                801- 850    4687

                851- 900    5157

                901- 950    3983

                951-1000    2850



   





   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: 2589





   4.1 Table of the frequency of journal citations



        Journals cited 1x:  837

                       2x:  350

                       3x:  156

                       4x:  131

                       5x:  105

                       6x:   87

                       7x:   55

                       8x:   58

                       9x:   28

                      10x:   39

                  11- 20x:  208

                  21- 50x:  206

                  51-100x:  113

                    >100x:  216





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



   Nb    Citations   Journal name

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

    1        23289   Journal of Biological Chemistry

    2        10637   Proceedings of the National Academy of Sciences of the U.S.A.

    3         6299   Journal of Bacteriology

    4         5378   Biochemical and Biophysical Research Communications

    5         5008   Biochemistry

    6         4849   Nucleic Acids Research

    7         4750   Gene

    8         4659   FEBS Letters

    9         4520   The EMBO Journal

   10         4198   Molecular and Cellular Biology

   11         4166   Nature

   12         4040   Journal of Molecular Biology

   13         3471   Biochimica et Biophysica Acta

   14         3359   Cell

   15         3336   European Journal of Biochemistry

   16         2897   Journal of Virology

   17         2794   Science

   18         2727   Biochemical Journal

   19         2525   Genomics

   20         2355   Molecular Microbiology

   21         2285   Plant Physiology

   22         2060   Journal of Cell Biology

   23         1894   The American Journal of Human Genetics

   24         1784   Plant Molecular Biology

   25         1759   Genes and Development

   26         1759   The Plant Cell

   27         1668   Human Molecular Genetics

   28         1653   Nature Genetics

   29         1640   Virology

   30         1606   The Plant Journal

   31         1538   Development

   32         1529   Molecular Biology of the Cell

   33         1503   Oncogene

   34         1457   Human Mutation

   35         1380   Molecular and General Genetics

   36         1379   PLoS ONE

   37         1375   Molecular Cell

   38         1313   Journal of Immunology

   39         1302   Journal of Biochemistry

   40         1238   Genetics

   41         1225   Structure

   42         1120   Journal of Cell Science

   43         1090   Blood

   44         1068   Journal of General Virology

   45         1062   Infection and Immunity

   46         1008   Microbiology

   47          994   Archives of Biochemistry and Biophysics

   48          947   Developmental Biology

   49          944   Current Biology

   50          854   Cancer Research

   51          826   Yeast

   52          808   Journal of Neuroscience

   53          804   FEMS Microbiology Letters

   54          804   Acta Crystallographica, Section D

   55          777   Applied and Environmental Microbiology

   56          728   Protein Science

   57          726   Toxicon

   58          677   Journal of Clinical Investigation

   59          675   Neuron

   60          664   Human Genetics

   61          638   Nature Structural Biology

   62          634   Mechanisms of Development

   63          629   American Journal of Physiology

   64          597   Plant and Cell Physiology

   65          588   The Journal of Experimental Medicine

   66          570   Proteins

   67          562   Current Genetics

   68          529   Journal of Medical Genetics

   69          523   Molecular Endocrinology

   70          518   Nature Cell Biology

   71          512   Bioscience, Biotechnology, and Biochemistry

   72          508   Journal of Neurochemistry

   73          497   The Journal of Clinical Endocrinology and Metabolism

   74          488   Mammalian Genome

   75          478   Endocrinology

   76          462   Immunogenetics

   77          445   Molecular and Biochemical Parasitology

   78          438   Nature Structural and Molecular Biology

   79          435   The FEBS Journal

   80          428   Developmental Cell

   81          425   Experimental Cell Research

   82          420   Antimicrobial Agents and Chemotherapy

   83          415   PLoS Genetics

   84          406   Journal of Molecular Evolution

   85          404   Eukaryotic Cell

   86          389   Peptides

   87          386   Molecular Biology and Evolution

   88          383   DNA and Cell Biology

   89          375   RNA

   90          372   Planta

   91          370   DNA Sequence

   92          348   Journal of Investigative Dermatology

   93          347   Molecular Pharmacology

   94          338   Comparative Biochemistry and Physiology

   95          336   Neurology

   96          334   Brain Research. Molecular Brain Research

   97          325   Tissue Antigens

   98          324   EMBO Reports

   99          318   Biology of Reproduction

  100          315   Journal of the American Chemical Society

  101          305   The FASEB Journal

  102          300   Molecular Plant-Microbe Interactions

  103          296   Immunity

  104          296   Genes to Cells

  105          294   Biological Chemistry Hoppe-Seyler

  106          294   Developmental Dynamics

  107          293   Biochimie

  108          292   The New England Journal of Medicine

  109          292   Acta Crystallographica, Section F

  110          288   Virus Research

  111          285   Journal of Experimental Botany

  112          282   Cytogenetics and Cell Genetics

  113          282   European Journal of Human Genetics

  114          280   Genome Research

  115          267   Journal of General Microbiology

  116          256   Annals of Neurology

  117          256   American Journal of Medical Genetics. Part A

  118          252   European Journal of Immunology

  119          249   PLoS Pathogens

  120          246   Clinical Genetics

  121          245   BMC Genomics

  122          240   Investigative Ophthalmology and Visual Science

  123          239   Nature Immunology

  124          232   Archives of Microbiology

  125          231   Journal of Human Genetics

  126          223   DNA Research

  127          219   Applied Microbiology and Biotechnology

  128          219   Journal of Medicinal Chemistry

  129          218   Hoppe-Seyler's Zeitschrift fur Physiologische Chemie

  130          217   Journal of Cellular Biochemistry

  131          211   Glycobiology

  132          203   Traffic

  133          202   Circulation Research

  134          201   Molecular Genetics and Metabolism

  135          200   Cell Cycle

  136          200   Archives of Virology

  137          199   Molecular and Cellular Endocrinology

  138          199   Molecular Immunology

  139          199   Diabetes

  140          198   PLoS Biology

  141          193   Journal of Lipid Research

  142          190   Protein Expression and Purification

  143          186   Phytochemistry

  144          178   Insect Biochemistry and Molecular Biology

  145          177   Molecular Genetics and Genomics

  146          174   International Journal of Cancer

  147          174   Nature Medicine

  148          174   Molecular and Cellular Neuroscience

  149          172   Molecular Phylogenetics and Evolution

  150          170   Hemoglobin





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)                      1155703                 2.09                                         

   Journal                            959720     440870      1.74       1                                 

   Submitted to EMBL/GenBank/DDBJ     185696     163606      0.34       2                                 

   Submitted to other databases         7175       6655      0.01       3                                 

   Book citation                        1492       1478     <0.01       4                                 

   Plant Gene Register                   600        588     <0.01       5                                 

   Thesis                                428        425     <0.01       6                                 

   Unpublished observations              389        385     <0.01       7                                 

   Patent                                197        193     <0.01       8                                 

   Worm Breeder's Gazette                  6          6     <0.01       9                                 



Total number of distinct authors cited in UniProtKB/Swiss-Prot: 377764



                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Comments (CC)                        2585857                 4.69                                         

   ALLERGEN                              707        707     <0.01      25                                 

   ALTERNATIVE PRODUCTS                24578      24578      0.04      13                                 

   BIOPHYSICOCHEMICAL PROPERTIES        7084       7084      0.01      21                                 

   BIOTECHNOLOGY                         644        642     <0.01      26                                 

   CATALYTIC ACTIVITY                 257887     231511      0.47       5                                 

   CAUTION                             10394      10188      0.02      19                                 

   COFACTOR                           118845     108897      0.22       7                                 

   DEVELOPMENTAL STAGE                 11006      11006      0.02      17                                 

   DISEASE                              6226       4160      0.01      22                                 

   DISRUPTION PHENOTYPE                10487      10487      0.02      18                                 

   DOMAIN                              44323      38386      0.08       9                                 

   ENZYME REGULATION                   13514      13513      0.02      16                                 

   FUNCTION                           447257     428730      0.81       2                                 

   INDUCTION                           18320      18319      0.03      14                                 

   INTERACTION                         15211      15211      0.03      15                                 

   MASS SPECTROMETRY                    6115       4617      0.01      23                                 

   MISCELLANEOUS                       35865      33038      0.07      12                                 

   PATHWAY                            135616     122872      0.25       6                                 

   PHARMACEUTICAL                         99         99     <0.01      29                                 

   POLYMORPHISM                         1043        987     <0.01      24                                 

   PTM                                 51113      38933      0.09       8                                 

   RNA EDITING                           627        627     <0.01      27                                 

   SEQUENCE CAUTION                    43222      43222      0.08      10                                 

   SIMILARITY                         668644     526788      1.21       1                                 

   SUBCELLULAR LOCATION               340428     333677      0.62       3                                 

   SUBUNIT                            265113     264970      0.48       4                                 

   TISSUE SPECIFICITY                  42866      42866      0.08      11                                 

   TOXIC DOSE                            623        577     <0.01      28                                 

   WEB RESOURCE                         8000       6780      0.01      20                                 



Total number of comment topics: 29





                                      Total    Number of  Average

   Line type / subtype                number   entries    per entry  Rank

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

Features (FT)                        4203918                 7.62                                         

   ACT_SITE                           157355      96131      0.29      10                                 

   BINDING                            360841      94840      0.65       3                                 

   CA_BIND                              3991       1678      0.01      36                                 

   CARBOHYD                           112337      28790      0.20      15                                 

   CHAIN                              559290     545266      1.01       1                                 

   COILED                              21521      14836      0.04      26                                 

   COMPBIAS                            57637      30868      0.10      19                                 

   CONFLICT                           132186      46361      0.24      13                                 

   CROSSLNK                            12979       6386      0.02      29                                 

   DISULFID                           118257      32263      0.21      14                                 

   DNA_BIND                            11285      10258      0.02      32                                 

   DOMAIN                             179943     109271      0.33       8                                 

   HELIX                              222013      20847      0.40       7                                 

   INIT_MET                            18329      18329      0.03      27                                 

   INTRAMEM                             2430       1061     <0.01      37                                 

   LIPID                               12630       8105      0.02      30                                 

   METAL                              358988      89390      0.65       4                                 

   MOD_RES                            234663      69981      0.43       5                                 

   MOTIF                               40143      25944      0.07      24                                 

   MUTAGEN                             57803      13075      0.10      18                                 

   NON_CONS                             2238        777     <0.01      38                                 

   NON_STD                               359        284     <0.01      39                                 

   NON_TER                             12289       9403      0.02      31                                 

   NP_BIND                            142584      80692      0.26      11                                 

   PEPTIDE                             10747       7301      0.02      33                                 

   PROPEP                              13498      11580      0.02      28                                 

   REGION                             179780      85145      0.33       9                                 

   REPEAT                             100819      14359      0.18      16                                 

   SIGNAL                              40412      40402      0.07      23                                 

   SITE                                52632      29367      0.10      21                                 

   STRAND                             231196      19657      0.42       6                                 

   TOPO_DOM                           136243      28065      0.25      12                                 

   TRANSIT                              9106       8993      0.02      34                                 

   TRANSMEM                           365858      75895      0.66       2                                 

   TURN                                53403      16902      0.10      20                                 

   UNSURE                               4331        757      0.01      35                                 

   VAR_SEQ                             51067      21493      0.09      22                                 

   VARIANT                             92830      17029      0.17      17                                 

   ZN_FING                             29905      13168      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)               17870917                32.39                                                           

   Allergome                            1703       1114     <0.01     111      Protein family/group databases               

   ArachnoServer                        1145       1135     <0.01     117      Organism-specific databases                  

   Bgee                                38898      38898      0.07      51      Gene expression databases                    

   BindingDB                            4610       4610      0.01      96      Chemistry                                    

   BioCyc                             325640     308332      0.59      20      Enzyme and pathway databases                 

   BioGrid                             48387      47928      0.09      46      Protein-protein interaction databases        

   BioMuta                             17246      17242      0.03      72      Polymorphism and mutation databases          

   BRENDA                              12763      11993      0.02      81      Enzyme and pathway databases                 

   CAZy                                 7903       7112      0.01      84      Protein family/group databases               

   CCDS                                46617      33616      0.08      47      Sequence databases                           

   CGD                                  1708       1692     <0.01     110      Organism-specific databases                  

   ChEMBL                               6391       6391      0.01      87      Chemistry                                    

   ChiTaRS                             16474      16464      0.03      76      Other                                        

   CleanEx                             30042      29402      0.05      57      Gene expression databases                    

   CollecTF                              133        133     <0.01     136      Gene expression databases                    

   COMPLUYEAST-2DPAGE                     99         98     <0.01     137      2D gel databases                             

   ConoServer                            949        866     <0.01     119      Organism-specific databases                  

   CTD                                 73532      72783      0.13      42      Organism-specific databases                  

   DEPOD                                 239        239     <0.01     134      PTM databases                                

   dictyBase                            4207       4092      0.01      99      Organism-specific databases                  

   DIP                                 16916      16860      0.03      73      Protein-protein interaction databases        

   DisProt                               605        602     <0.01     125      3D structure databases                       

   DMDM                                16376      16372      0.03      77      Polymorphism and mutation databases          

   DNASU                               18883      18811      0.03      68      Protocols and materials databases            

   DOSAC-COBS-2DPAGE                     146        146     <0.01     135      2D gel databases                             

   DrugBank                            11784       1909      0.02      82      Chemistry                                    

   EchoBASE                             4161       4161      0.01     100      Organism-specific databases                  

   EcoGene                              4294       4292      0.01      98      Organism-specific databases                  

   eggNOG                             657513     328174      1.19       5      Phylogenomic databases                       

   EMBL                               978362     540347      1.77       3      Sequence databases                           

   Ensembl                             84549      48481      0.15      40      Genome annotation databases                  

   EnsemblBacteria                    354842     335830      0.64      17      Genome annotation databases                  

   EnsemblFungi                        30297      27847      0.05      56      Genome annotation databases                  

   EnsemblMetazoa                      13225       9857      0.02      79      Genome annotation databases                  

   EnsemblPlants                       22148      18865      0.04      62      Genome annotation databases                  

   EnsemblProtists                      4881       4718      0.01      95      Genome annotation databases                  

   EPD                                 25471      25471      0.05      60      Proteomic databases                          

   ESTHER                               2442       2440     <0.01     107      Protein family/group databases               

   euHCVdb                                55         44     <0.01     139      Organism-specific databases                  

   EuPathDB                            18039      18038      0.03      71      Organism-specific databases                  

   EvolutionaryTrace                   16557      16555      0.03      75      Other                                        

   ExpressionAtlas                     33146      33146      0.06      53      Gene expression databases                    

   FlyBase                              6017       5655      0.01      90      Organism-specific databases                  

   Gene3D                             472437     348222      0.86       9      Family and domain databases                  

   GeneCards                           20020      19845      0.04      65      Organism-specific databases                  

   GeneDB                                389        350     <0.01     131      Genome annotation databases                  

   GeneID                             274725     265913      0.50      23      Genome annotation databases                  

   GeneReviews                          1156       1153     <0.01     116      Organism-specific databases                  

   GeneTree                            55495      55451      0.10      43      Phylogenomic databases                       

   Genevisible                         55147      55147      0.10      44      Gene expression databases                    

   GeneWiki                            10368      10282      0.02      83      Other                                        

   GenomeRNAi                          21812      21811      0.04      63      Other                                        

   GO                                2748926     523990      4.98       1      Ontologies                                   

   Gramene                             18297      15903      0.03      70      Genome annotation databases                  

   GuidetoPHARMACOLOGY                  1889       1889     <0.01     109      Chemistry                                    

   H-InvDB                              5589       4768      0.01      92      Organism-specific databases                  

   HAMAP                              325906     323097      0.59      19      Family and domain databases                  

   HGNC                                20008      19860      0.04      66      Organism-specific databases                  

   HOGENOM                            388906     388906      0.70      16      Phylogenomic databases                       

   HOVERGEN                            75787      75787      0.14      41      Phylogenomic databases                       

   HPA                                 24696      16207      0.04      61      Organism-specific databases                  

   InParanoid                         136026     136026      0.25      27      Phylogenomic databases                       

   IntAct                              46087      46087      0.08      48      Protein-protein interaction databases        

   InterPro                          1939801     532045      3.52       2      Family and domain databases                  

   iPTMnet                             45888      45888      0.08      49      PTM databases                                

   KEGG                               502423     467319      0.91       7      Genome annotation databases                  

   KO                                 391163     390718      0.71      15      Phylogenomic databases                       

   LegioList                             765        763     <0.01     122      Organism-specific databases                  

   Leproma                               672        669     <0.01     123      Organism-specific databases                  

   MaizeGDB                              506        501     <0.01     128      Organism-specific databases                  

   MalaCards                            3773       3771      0.01     101      Organism-specific databases                  

   MaxQB                               32297      32297      0.06      54      Proteomic databases                          

   MEROPS                              12945      12945      0.02      80      Protein family/group databases               

   MGI                                 16721      16677      0.03      74      Organism-specific databases                  

   MIM                                 19795      14517      0.04      67      Organism-specific databases                  

   MINT                                31728      31728      0.06      55      Protein-protein interaction databases        

   MoonProt                               63         63     <0.01     138      Protein family/group databases               

   mycoCLAP                              349        345     <0.01     133      Protein family/group databases               

   neXtProt                            20040      20037      0.04      64      Organism-specific databases                  

   OGP                                   375        375     <0.01     132      2D gel databases                             

   OMA                                407526     407526      0.74      13      Phylogenomic databases                       

   Orphanet                             6148       3289      0.01      88      Organism-specific databases                  

   OrthoDB                            391209     391209      0.71      14      Phylogenomic databases                       

   PANTHER                            173754     166808      0.31      26      Family and domain databases                  

   PATRIC                             308276     308241      0.56      21      Genome annotation databases                  

   PaxDb                              110844     110686      0.20      34      Proteomic databases                          

   PDB                                131370      23605      0.24      31      3D structure databases                       

   PDBsum                             131370      23605      0.24      30      3D structure databases                       

   PeptideAtlas                        29283      29283      0.05      58      Proteomic databases                          

   PeroxiBase                            771        755     <0.01     121      Protein family/group databases               

   Pfam                               744763     509859      1.35       4      Family and domain databases                  

   PharmGKB                            18379      18338      0.03      69      Organism-specific databases                  

   PhosphoSite                         33547      33547      0.06      52      PTM databases                                

   PhylomeDB                           94844      94844      0.17      38      Phylogenomic databases                       

   PIR                                123066     112763      0.22      33      Sequence databases                           

   PIRSF                              104435     103397      0.19      36      Family and domain databases                  

   PMAP-CutDB                           1461       1461     <0.01     112      Other                                        

   PomBase                              5140       5121      0.01      94      Organism-specific databases                  

   PRIDE                              123967     123967      0.22      32      Proteomic databases                          

   PRINTS                             133782     117991      0.24      29      Family and domain databases                  

   PRO                                 90091      90091      0.16      39      Other                                        

   ProDom                              29142      28961      0.05      59      Family and domain databases                  

   ProMEX                                436        436     <0.01     129      Proteomic databases                          

   PROSITE                            453365     291455      0.82      11      Family and domain databases                  

   ProteinModelPortal                 444048     444048      0.80      12      3D structure databases                       

   Proteomes                          469571     448714      0.85      10      Other                                        

   PseudoCAP                            1309       1300     <0.01     113      Organism-specific databases                  

   Reactome                           101173      30632      0.18      37      Enzyme and pathway databases                 

   REBASE                                405        405     <0.01     130      Protein family/group databases               

   RefSeq                             600879     463085      1.09       6      Sequence databases                           

   REPRODUCTION-2DPAGE                  1259       1038     <0.01     114      2D gel databases                             

   RGD                                  7889       7886      0.01      85      Organism-specific databases                  

   SABIO-RK                             3329       3329      0.01     102      Enzyme and pathway databases                 

   SGD                                  6739       6734      0.01      86      Organism-specific databases                  

   SignaLink                            3002       3002      0.01     104      Enzyme and pathway databases                 

   SIGNOR                               2940       2940      0.01     105      Enzyme and pathway databases                 

   SMART                              189345     139789      0.34      25      Family and domain databases                  

   SMR                                226104     226104      0.41      24      3D structure databases                       

   STRING                             326227     326227      0.59      18      Protein-protein interaction databases        

   SUPFAM                             480002     364013      0.87       8      Family and domain databases                  

   SWISS-2DPAGE                         1180       1180     <0.01     115      2D gel databases                             

   SwissLipids                          1047        969     <0.01     118      Chemistry                                    

   SwissPalm                            5945       5945      0.01      91      PTM databases                                

   TAIR                                14738      14682      0.03      78      Organism-specific databases                  

   TCDB                                 6031       6000      0.01      89      Protein family/group databases               

   TIGRFAMs                           292146     271996      0.53      22      Family and domain databases                  

   TopDownProteomics                    3196       2909      0.01     103      Proteomic databases                          

   TreeFam                             44975      44969      0.08      50      Phylogenomic databases                       

   TubercuList                          2124       2088     <0.01     108      Organism-specific databases                  

   UCD-2DPAGE                            508        499     <0.01     127      2D gel databases                             

   UCSC                                48774      44763      0.09      45      Genome annotation databases                  

   UniCarbKB                             584        584     <0.01     126      PTM databases                                

   UniGene                            106430      94439      0.19      35      Sequence databases                           

   UniPathway                         135309     122577      0.25      28      Enzyme and pathway databases                 

   VectorBase                            618        600     <0.01     124      Genome annotation databases                  

   WBParaSite                             29         29     <0.01     140      Genome annotation databases                  

   World-2DPAGE                          925        914     <0.01     120      2D gel databases                             

   WormBase                             5545       4277      0.01      93      Organism-specific databases                  

   Xenbase                              4450       4444      0.01      97      Organism-specific databases                  

   ZFIN                                 2808       2808      0.01     106      Organism-specific databases                  



Total number of cross-referenced databases: 140



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) 6.59

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

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

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

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



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



   



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

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





   6.2  Classification of the amino acids by their frequency



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

   Phe, Tyr, Met, His, Cys, Trp





7.  MISCELLANEOUS STATISTICS



4463 entries are encoded on a mitochondrion, and 3845 are encoded on a plasmid.



12188 entries are encoded on a plastid, 

of which 21 are encoded on apicoplasts, 

11623 on chloroplasts, 

51 on organellar chromatophores,

145 on cyanelles, 

149 on non-photosynthetic plastids and 

199 on unspecified types of plastid.



Number of entries with at least one sequence correction: 77723