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         UniProtKB/TrEMBL PROTEIN DATABASE RELEASE 2013_01 STATISTICS


1.  INTRODUCTION

Release 2013_01 of 09-Jan-2013 of UniProtKB/TrEMBL contains 29266939 sequence entries,
comprising 9427157298 amino acids .

936120 sequences have been added since release 2012_11, the sequence data of
36647 existing entries has been updated and the annotations of
11841242 entries have been revised. This represents an increase of 3%.

Number of fragments: 3804361

Protein existence (PE):              entries      %
1: Evidence at protein level           14128     0.05%
2: Evidence at transcript level       647041     2.21%
3: Inferred from homology            6777086    23.16%
4: Predicted                        21828684    74.58%
5: Uncertain                               0     0.00%

The growth of the database is summarized below.

   



2.  TAXONOMIC ORIGIN

   Total number of species represented in this release of UniProtKB/TrEMBL: 386951

   The first twenty species represent 1753638 sequences:     6 % of the
   total number of entries.


   2.1 Table of the frequency of occurrence of species

        Species represented 1x:16242
                            2x:64555
                            3x:34983
                            4x:23250
                            5x:14696
                            6x:10625
                            7x: 7987
                            8x: 6241
                            9x: 5054
                           10x: 9820
                       11- 20x:25669
                       21- 50x: 9048
                       51-100x: 3468
                         >100x: 9130


   2.2  Table of the most represented species

  ------  ---------  --------------------------------------------
  Number  Frequency  Species
  ------  ---------  --------------------------------------------
       1     502941  Human immunodeficiency virus 1
       2     180820  uncultured bacterium
       3     113576  Homo sapiens (Human)
       4      96951  Oryza sativa subsp. japonica (Rice)
       5      78428  Hepatitis C virus
       6      73724  Glycine max (Soybean) (Glycine hispida)
       7      68970  Macaca mulatta (Rhesus macaque)
       8      58232  Mus musculus (Mouse)
       9      56116  Medicago truncatula (Barrel medic) (Medicago tribuloides)
      10      54935  Hepatitis B virus (HBV)
      11      54191  Danio rerio (Zebrafish) (Brachydanio rerio)
      12      54089  Vitis vinifera (Grape)
      13      50594  Trichomonas vaginalis
      14      49230  Tetraodon nigroviridis (Spotted green pufferfish) (Chelonodon nigroviridis)
      15      48878  Takifugu rubripes (Japanese pufferfish) (Fugu rubripes)
      16      44540  Populus trichocarpa (Western balsam poplar) 
      17      43145  Callithrix jacchus (White-tufted-ear marmoset)
      18      42299  Arabidopsis thaliana (Mouse-ear cress)
      19      42129  Zea mays (Maize)
      20      39850  Paramecium tetraurelia
      21      39805  Oryza sativa subsp. indica (Rice)
      22      39291  Setaria italica (Foxtail millet) (Panicum italicum)
      23      38163  human gut metagenome
      24      35879  Solanum lycopersicum (Tomato) (Lycopersicon esculentum)
      25      35602  Ailuropoda melanoleuca (Giant panda)
      26      35193  Acyrthosiphon pisum (Pea aphid)
      27      35066  Caenorhabditis japonica
      28      34802  Physcomitrella patens subsp. patens (Moss)
      29      34453  Thalassiosira oceanica (Marine diatom)
      30      34176  Drosophila melanogaster (Fruit fly)
      31      33910  Rattus norvegicus (Rat)
      32      33777  Sorghum bicolor (Sorghum) (Sorghum vulgare)
      33      33267  Selaginella moellendorffii (Spikemoss)
      34      32769  Arabidopsis lyrata subsp. lyrata (Lyre-leaved rock-cress)
      35      32339  Oryza brachyantha
      36      32122  Caenorhabditis remanei (Caenorhabditis vulgaris)
      37      32093  Oryza glaberrima (African rice)
      38      31833  Pan troglodytes (Chimpanzee)
      39      31472  Sus scrofa (Pig)
      40      31397  Ricinus communis (Castor bean)
      41      30917  Daphnia pulex (Water flea)
      42      30300  Caenorhabditis brenneri (Nematode worm)
      43      30143  Brachypodium distachyon (Purple false brome) (Trachynia distachya)
      44      29815  Amphimedon queenslandica (Sponge)
      45      29451  Strongylocentrotus purpuratus (Purple sea urchin)
      46      29315  Pristionchus pacificus
      47      29178  Branchiostoma floridae (Florida lancelet) (Amphioxus)
      48      29053  Oikopleura dioica (Tunicate)
      49      28521  Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
      50      28446  Canis familiaris (Dog) (Canis lupus familiaris)
      51      28362  Escherichia coli
      52      28343  Simian immunodeficiency virus (SIV)
      53      28055  Gasterosteus aculeatus (Three-spined stickleback)
      54      27685  Macaca fascicularis (Crab-eating macaque) (Cynomolgus monkey)
      55      27490  Oreochromis niloticus (Nile tilapia) (Tilapia nilotica)
      56      27089  Gorilla gorilla gorilla (Lowland gorilla)
      57      26818  Crassostrea gigas (Pacific oyster) (Crassostrea angulata)
      58      26790  Gallus gallus (Chicken)
      59      25900  Oryzias latipes (Medaka fish) (Japanese ricefish)
      60      25758  Loxodonta africana (African elephant)
      61      25721  Phytophthora sojae (strain P6497) (Soybean stem and root rot agent) 
      62      25384  Bos taurus (Bovine)
      63      25074  Oryctolagus cuniculus (Rabbit)
      64      24879  Nematostella vectensis (Starlet sea anemone)
      65      24643  Tetrahymena thermophila (strain SB210)
      66      24200  Cricetulus griseus (Chinese hamster) (Cricetulus barabensis griseus)
      67      24059  Equus caballus (Horse)
      68      23715  Ornithorhynchus anatinus (Duckbill platypus)
      69      23565  Oxytricha trifallax
      70      23225  Nomascus leucogenys (Northern white-cheeked gibbon) (Hylobates leucogenys)
      71      23115  Perkinsus marinus (strain ATCC 50983 / TXsc)
      72      22714  Monodelphis domestica (Gray short-tailed opossum)
      73      22560  Sarcophilus harrisii (Tasmanian devil) (Sarcophilus laniarius)
      74      22437  Caenorhabditis elegans
      75      22305  Pongo abelii (Sumatran orangutan) (Pongo pygmaeus abelii)
      76      22163  gut metagenome
      77      21821  Latimeria chalumnae (West Indian ocean coelacanth)
      78      21699  Hordeum vulgare var. distichum (Two-rowed barley)
      79      21546  Heterocephalus glaber (Naked mole rat)
      80      21339  Caenorhabditis briggsae
      81      21086  Ixodes scapularis (Black-legged tick) (Deer tick)
      82      20854  Myotis lucifugus (Little brown bat)
      83      20732  Pelodiscus sinensis (Chinese softshell turtle) (Trionyx sinensis)
      84      20130  Otolemur garnettii (Small-eared galago) (Garnett's greater bushbaby)
      85      20114  Ciona savignyi (Pacific transparent sea squirt)
      86      20069  Cavia porcellus (Guinea pig)
      87      19969  Spermophilus tridecemlineatus (Thirteen-lined ground squirrel) 
      88      19671  Taeniopygia guttata (Zebra finch) (Poephila guttata)
      89      19438  Wuchereria bancrofti
      90      19320  Toxoplasma gondii
      91      19255  Anolis carolinensis (Green anole) (American chameleon)
      92      19200  Trypanosoma cruzi (strain CL Brener)
      93      18919  Culex quinquefasciatus (Southern house mosquito) (Culex pungens)
      94      18771  mine drainage metagenome
      95      18706  Drosophila simulans (Fruit fly)
      96      18585  Ciona intestinalis (Transparent sea squirt) (Ascidia intestinalis)
      97      18121  Atta cephalotes (Leafcutter ant)
      98      17839  Laccaria bicolor (strain S238N-H82 / ATCC MYA-4686) (Bicoloured deceiver) 
      99      17784  Fusarium oxysporum (strain Fo5176) (Panama disease fungus)
     100      17599  Phytophthora infestans (strain T30-4) (Potato late blight fungus)
     101      17384  Aedes aegypti (Yellowfever mosquito) (Culex aegypti)
     102      17374  Bombyx mori (Silk moth)
     103      17277  Nasonia vitripennis (Parasitic wasp)
     104      17031  Drosophila yakuba (Fruit fly)
     105      17011  Tribolium castaneum (Red flour beetle)
     106      16946  Rhizopus delemar (strain RA 99-880 / ATCC MYA-4621 / FGSC 9543 / NRRL 43880)  
     107      16871  Meleagris gallopavo (Common turkey)
     108      16714  Drosophila persimilis (Fruit fly)
     109      16643  Fusarium oxysporum f. sp. lycopersici  
     110      16475  Drosophila pseudoobscura pseudoobscura (Fruit fly)
     111      16426  Ectocarpus siliculosus (Brown alga)
     112      16345  Botryotinia fuckeliana (strain T4) (Noble rot fungus) (Botrytis cinerea)
     113      16306  Danaus plexippus (Monarch butterfly)
     114      16263  Trichinella spiralis (Trichina worm)
     115      16237  Melampsora larici-populina (strain 98AG31 / pathotype 3-4-7) 
     116      16188  Drosophila sechellia (Fruit fly)
     117      16140  Schistosoma japonicum (Blood fluke)
     118      16110  Colletotrichum higginsianum (strain IMI 349063) (Crucifer anthracnose fungus)
     119      15930  Hepatitis C virus subtype 1b
     120      15816  Plasmodium falciparum
     121      15793  Puccinia graminis f. sp. tritici (strain CRL 75-36-700-3 / race SCCL) 
     122      15762  Phaeosphaeria nodorum (strain SN15 / ATCC MYA-4574 / FGSC 10173)  
     123      15715  Naegleria gruberi (Amoeba)
     124      15653  Nectria haematococca (strain 77-13-4 / ATCC MYA-4622 / FGSC 9596 / MPVI) 
     125      15630  Anopheles gambiae (African malaria mosquito)
     126      15563  Phytophthora ramorum (Sudden oak death agent)
     127      15420  Drosophila willistoni (Fruit fly)
     128      15354  Loa loa (Eye worm) (Filaria loa)
     129      15225  Pythium ultimum
     130      15173  Hepatitis C virus subtype 1a
     131      15143  Drosophila ananassae (Fruit fly)
     132      15036  Harpegnathos saltator (Jerdon's jumping ant)
     133      14927  Drosophila erecta (Fruit fly)
     134      14851  Chlamydomonas reinhardtii (Chlamydomonas smithii)
     135      14797  Camponotus floridanus (Florida carpenter ant)
     136      14788  Drosophila mojavensis (Fruit fly)
     137      14701  Drosophila virilis (Fruit fly)
     138      14697  Plasmodium chabaudi
     139      14650  Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi)
     140      14610  Gaeumannomyces graminis var. tritici (strain R3-111a-1) 
     141      14417  Volvox carteri (Green alga)
     142      14339  Serpula lacrymans var. lacrymans (strain S7.3) (Dry rot fungus)
     143      14336  Solenopsis invicta (Red imported fire ant) (Solenopsis wagneri)
     144      14236  Sclerotinia sclerotiorum (strain ATCC 18683 / 1980 / Ss-1) (White mold) 
     145      13966  Acromyrmex echinatior (Panamanian leafcutter ant) 
     146      13867  Phanerochaete carnosa (strain HHB-10118-sp) (White-rot fungus) 
     147      13863  Clonorchis sinensis (Chinese liver fluke)
     148      13801  Macrophomina phaseolina (strain MS6) (Charcoal rot fungus)
     149      13766  Aspergillus niger (strain CBS 513.88 / FGSC A1513)
     150      13648  Moniliophthora perniciosa (strain FA553 / isolate CP02)  
     151      13530  Trypanosoma cruzi
     152      13329  Aspergillus flavus 
     153      13266  Coprinopsis cinerea (strain Okayama-7 / 130 / ATCC MYA-4618 / FGSC 9003)  
     154      13186  Mustela putorius furo (European domestic ferret) (Mustela furo)
     155      13121  Schizophyllum commune (strain H4-8 / FGSC 9210) (Split gill fungus)
     156      13043  Magnaporthe oryzae (strain 70-15 / ATCC MYA-4617 / FGSC 8958)  
     157      12983  Albugo laibachii Nc14
     158      12950  Stigmatella aurantiaca (strain DW4/3-1)
     159      12936  Talaromyces stipitatus (strain ATCC 10500 / CBS 375.48 / QM 6759 / NRRL 1006) 
     160      12900  Gibberella zeae (strain PH-1 / ATCC MYA-4620 / FGSC 9075 / NRRL 31084)  
     161      12722  Serpula lacrymans var. lacrymans (strain S7.9) (Dry rot fungus)
     162      12696  Trypanosoma congolense (strain IL3000)
     163      12682  Penicillium chrysogenum (strain ATCC 28089 / DSM 1075 / Wisconsin 54-1255) 
     164      12674  Schistosoma mansoni (Blood fluke)
     165      12603  Xenopus laevis (African clawed frog)
     166      12570  Ralstonia solanacearum (Pseudomonas solanacearum)
     167      12447  Fusarium pseudograminearum (strain CS3096) (Wheat and barley crown-rot fungus)
     168      12446  Leptosphaeria maculans (strain JN3 / isolate v23.1.3 / race Av1-4-5-6-7-8)  
     169      12440  Polysphondylium pallidum (Cellular slime mold)
     170      12390  Rabies virus
     171      12389  Hypocrea virens (strain Gv29-8 / FGSC 10586) (Gliocladium virens) 
     172      12352  Dictyostelium purpureum (Slime mold)
     173      12329  uncultured archaeon
     174      12152  Dictyostelium fasciculatum (strain SH3) (Slime mold)
     175      11994  Pyrenophora tritici-repentis (strain Pt-1C-BFP) (Wheat tan spot fungus) 
     176      11993  Colletotrichum graminicola (strain M1.001 / M2 / FGSC 10212)  
     177      11946  Porcine reproductive and respiratory syndrome virus (PRRSV)
     178      11945  Emericella nidulans  
     179      11927  Helicobacter pylori (Campylobacter pylori)
     180      11914  Apis mellifera (Honeybee)
     181      11815  Hypocrea atroviridis (strain ATCC 20476 / IMI 206040) (Trichoderma atroviride)
     182      11780  Piriformospora indica (strain DSM 11827)
     183      11752  Chondrocladia sp. SMF<DEU
     184      11751  Cladorhiza sp. SMF<DEU
     185      11750  Abyssocladia sp. SMF<DEU
     186      11726  Phelloderma sp. SMF<DEU
     187      11715  Thalassiosira pseudonana (Marine diatom) (Cyclotella nana)
     188      11703  Salpingoeca sp. (strain ATCC 50818) (Proterospongia sp. 
     189      11685  Pyrenophora teres f. teres (strain 0-1) (Barley net blotch fungus) 
     190      11674  Anopheles darlingi (Mosquito)
     191      11644  Plasmodium berghei (strain Anka)
     192      11586  Aspergillus oryzae (strain ATCC 42149 / RIB 40) (Yellow koji mold)
     193      11566  Trichoplax adhaerens (Trichoplax reptans)
     194      11557  Trypanosoma vivax (strain Y486)
     195      11515  Puccinia triticina (isolate 1-1 / race 1 (BBBD)) (Brown leaf rust fungus)
     196      11514  Aureococcus anophagefferens (Harmful bloom alga)
     197      11499  Brugia malayi (Filarial nematode worm)
     198      11480  Aspergillus kawachii (strain NBRC 4308) (White koji mold) 
     199      11477  Arthrobotrys oligospora (strain ATCC 24927 / CBS 115.81 / DSM 1491)  
     200      11396  Aspergillus oryzae (strain 3.042) (Yellow koji mold)
     201      11278  Picea sitchensis (Sitka spruce) (Pinus sitchensis)
     202      11211  Ktedonobacter racemifer DSM 44963
     203      11211  Agaricus bisporus var. burnettii (strain JB137-S8 / ATCC MYA-4627 / FGSC 10392) 
     204      11177  Neurospora tetrasperma (strain FGSC 2509 / P0656)
     205      10971  Mycosphaerella graminicola (strain CBS 115943 / IPO323)  
     206      10964  Streptomyces clavuligerus 
     207      10949  Aspergillus niger 
     208      10839  Pediculus humanus subsp. corporis (Body louse)
     209      10822  Chaetomium globosum  
     210      10570  Metarhizium anisopliae (strain ARSEF 23 / ATCC MYA-3075)
     211      10563  Amycolatopsis mediterranei S699
     212      10547  Podospora anserina (strain S / ATCC MYA-4624 / DSM 980 / FGSC 10383) 
     213      10542  Verticillium dahliae (strain VdLs.17 / ATCC MYA-4575 / FGSC 10137)
     214      10387  Pseudomonas syringae pv. glycinea str. race 4
     215      10378  Neurospora tetrasperma (strain FGSC 2508 / ATCC MYA-4615 / P0657)
     216      10377  Penicillium marneffei (strain ATCC 18224 / CBS 334.59 / QM 7333)
     217      10361  Beauveria bassiana (strain ARSEF 2860) (White muscardine disease fungus) 
     218      10354  Phaeodactylum tricornutum (strain CCAP 1055/1)
     219      10273  Micromonas pusilla (strain CCMP1545) (Picoplanktonic green alga)
     220      10221  Shigella flexneri 1235-66
     221      10216  Burkholderia terrae BS001
     222      10204  Verticillium albo-atrum (strain VaMs.102 / ATCC MYA-4576 / FGSC 10136) 
     223      10194  Coccidioides posadasii (strain RMSCC 757 / Silveira) (Valley fever fungus)
     224      10170  Ascaris suum (Pig roundworm) (Ascaris lumbricoides)
     225      10127  Trypanosoma cruzi marinkellei
     226      10113  Burkholderia sp. BT03
     227      10109  Micromonas sp. (strain RCC299 / NOUM17) (Picoplanktonic green alga)
     228      10089  Ajellomyces dermatitidis (strain ATCC 18188 / CBS 674.68) 
     229      10087  Aspergillus terreus (strain NIH 2624 / FGSC A1156)
     230      10051  Neosartorya fischeri (strain ATCC 1020 / DSM 3700 / FGSC A1164 / NRRL 181) 
     231      10034  Marssonina brunnea f. sp. multigermtubi (strain MB_m1) 
     232      10013  Streptomyces bingchenggensis (strain BCW-1)
     233       9949  Klebsiella pneumoniae
     234       9846  Sordaria macrospora (strain ATCC MYA-333 / DSM 997 / K(L3346) / K-hell)
     235       9836  Chlorella variabilis (Green alga)
     236       9822  Metarhizium acridum (strain CQMa 102)
     237       9799  Coccomyxa subellipsoidea C-169
     238       9760  Thielavia terrestris (strain ATCC 38088 / NRRL 8126) (Acremonium alabamense)
     239       9703  Neosartorya fumigata (strain CEA10 / CBS 144.89 / FGSC A1163) 
     240       9662  Trypanosoma brucei gambiense (strain MHOM/CI/86/DAL972)
     241       9651  Cordyceps militaris (strain CM01) (Caterpillar fungus)
     242       9597  Streptomyces cattleya 
     243       9533  Ajellomyces dermatitidis (strain SLH14081) (Blastomyces dermatitidis)
     244       9510  Ajellomyces capsulata (strain H143) (Darling's disease fungus) 
     245       9507  Salmo salar (Atlantic salmon)
     246       9485  Ajellomyces dermatitidis (strain ER-3 / ATCC MYA-2586) 
     247       9483  Coccidioides immitis (strain RS) (Valley fever fungus)
     248       9443  Ajellomyces capsulata (strain H88) (Darling's disease fungus) 
     249       9391  Exophiala dermatitidis (strain ATCC 34100 / CBS 525.76 / NIH/UT8656)  
     250       9251  Fibroporia radiculosa


   
   2.3  Taxonomic distribution of the sequences

   

   Kingdom        sequences (% of the database)
    Archaea          408842 (  1%)
    Bacteria       20361597 ( 70%)
    Eukaryota       6846383 ( 23%)
    Viruses         1547692 (  5%)
    Other            102424 ( <1%)



   Within Eukaryota:

   

    Category            sequences (% of Eukaryota) (% of the complete database)
     Human                 113612 (  2%)           (  0%)
     Other Mammalia        845085 ( 12%)           (  3%)
     Other Vertebrata      753401 ( 11%)           (  3%)
     Viridiplantae        1317778 ( 19%)           (  5%)
     Fungi                1510587 ( 22%)           (  5%)
     Insecta               782338 ( 11%)           (  3%)
     Nematoda              252562 (  4%)           (  1%)
     Other                1271020 ( 19%)           (  4%)



3.  SEQUENCE SIZE

   Repartition of the sequences by size (excluding fragments)

               From   To  Number             From   To   Number
                  1-  50  755730             1001-1100   168936
                 51- 100 2504899             1101-1200   118418
                101- 150 2798075             1201-1300    83249
                151- 200 2715002             1301-1400    53034
                201- 250 2729580             1401-1500    42871
                251- 300 2645019             1501-1600    29671
                301- 350 2401964             1601-1700    22537
                351- 400 1820598             1701-1800    17087
                401- 450 1569876             1801-1900    14194
                451- 500 1287032             1901-2000    12118
                501- 550  851336             2001-2100     9497
                551- 600  655543             2101-2200     9743
                601- 650  479546             2201-2300     7592
                651- 700  376441             2301-2400     6087
                701- 750  317101             2401-2500     5197
                751- 800  279539             >2500        42031
                801- 850  213365
                851- 900  190510
                901- 950  132149
                951-1000   97011

   


   The average sequence length in UniProtKB/TrEMBL is   322 amino acids.

   The shortest sequence is G0XMK1_9MYRT:     1 amino acids.
   The longest sequence is  Q3ASY8_CHLCH: 36805 amino acids.



4.  STATISTICS FOR SOME LINE TYPES

The following table summarizes the total number of some UniProtKB/TrEMBL 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)                    35659949                1.22                                                    
   Submitted to EMBL/GenBank/DDBJ  19645186  18124632      0.67                                                    
   Journal                         14507716  13660992      0.50                                                    
   Submitted to other databases     1490660   1481406      0.05                                                    
   Thesis                              9861      9803     <0.01                                                    
   Book citation                       6506      6457     <0.01                                                    
   Unpublished observations              19        19     <0.01                                                    
   Patent                                 1         1     <0.01                                                    

Total number of distinct authors cited in UniProtKB/TrEMBL: 456562


                                   Total    Number of  Average
Line type / subtype                number   entries    per entry  Rank
---------------------------------  -------- ---------  ---------  ----

Comments (CC)                      36180072                1.24                                                    
   CATALYTIC ACTIVITY               3133293   2851026      0.11     4                                              
   CAUTION                         13393492  13393247      0.46     1                                              
   COFACTOR                         1186735   1098197      0.04     8                                              
   DOMAIN                            118504    113749     <0.01     9                                              
   FUNCTION                         3425325   3205049      0.12     3                                              
   INTERACTION                          690       690     <0.01    11                                              
   MISCELLANEOUS                      82701     82605     <0.01    10                                              
   PATHWAY                          1552547   1411355      0.05     7                                              
   SIMILARITY                       8834143   7669541      0.30     2                                              
   SUBCELLULAR LOCATION             2759375   2633226      0.09     5                                              
   SUBUNIT                          1693267   1673876      0.06     6                                              

Total number of comment topics: 11


                                   Total    Number of  Average
Line type / subtype                number   entries    per entry  Rank
---------------------------------  -------- ---------  ---------  ----

Features (FT)                       7381377                0.25                                                    
   CHAIN                             774905    642346      0.03     2                                              
   NON_TER                          5990131   3805013      0.20     1                                              
   SIGNAL                            615484    612214      0.02     3                                              
   TRANSIT                              857       856     <0.01     4                                              

Total number of feature keys: 4


                                   Total    Number of  Average
Line type / subtype                number   entries    per entry  Rank  Category
---------------------------------  -------- ---------  ---------  ----  -------------------------------------------
Cross-references (DR)             330404216               11.29                                                    
   AGD                                 2525      2525     <0.01    85   Organism-specific databases                
   ANU-2DPAGE                            52        52     <0.01   101   2D gel databases                           
   Allergome                           3024      2409     <0.01    81   Protein family/group databases             
   ArachnoServer                         66        66     <0.01   100   Organism-specific databases                
   ArrayExpress                       86858     86858     <0.01    52   Gene expression databases                  
   BRENDA                              2680      2651     <0.01    83   Enzyme and pathway databases               
   Bgee                              118824    118824     <0.01    49   Gene expression databases                  
   BioCyc                           3585778   3547066      0.12    20   Enzyme and pathway databases               
   CAZy                               74131     69652     <0.01    56   Protein family/group databases             
   CGD                                 7064      7064     <0.01    77   Organism-specific databases                
   COMPLUYEAST-2DPAGE                     5         5     <0.01   107   2D gel databases                           
   CTD                               322062    320469      0.01    38   Organism-specific databases                
   ChEMBL                               576       576     <0.01    92   Other                                      
   ConoServer                           160       160     <0.01    96   Organism-specific databases                
   DIP                                 2782      2777     <0.01    82   Protein-protein interaction databases      
   DNASU                              43665     43327     <0.01    61   Protocols and materials databases          
   EMBL                            32113816  28423223      1.10     3   Sequence databases                         
   Ensembl                           959177    943419      0.03    29   Genome annotation databases                
   EnsemblBacteria                   834798    800722      0.03    30   Genome annotation databases                
   EnsemblFungi                      262813    261328      0.01    41   Genome annotation databases                
   EnsemblMetazoa                    629747    614533      0.02    32   Genome annotation databases                
   EnsemblPlants                     425229    405703      0.01    37   Genome annotation databases                
   EnsemblProtists                   126697    125197     <0.01    48   Genome annotation databases                
   EuPathDB                          178957    178954      0.01    45   Organism-specific databases                
   EvolutionaryTrace                   8177      8177     <0.01    75   Other                                      
   FlyBase                           182089    180690      0.01    44   Organism-specific databases                
   GO                              59000915  18239516      2.02     2   Ontologies                                 
   Gene3D                          12548459   9987923      0.43     6   Family and domain databases                
   GeneID                           8760277   8545494      0.30     9   Genome annotation databases                
   GeneTree                          798347    798164      0.03    31   Phylogenomic databases                     
   Genevestigator                     93341     93333     <0.01    51   Gene expression databases                  
   GenoList                           14735     14462     <0.01    73   Organism-specific databases                
   GenomeRNAi                         21434     21434     <0.01    67   Other                                      
   GenomeReviews                    4251570   4152775      0.15    16   Genome annotation databases                
   Gramene                            67608     67608     <0.01    57   Organism-specific databases                
   H-InvDB                              626       478     <0.01    91   Organism-specific databases                
   HAMAP                            2916833   2880798      0.10    22   Family and domain databases                
   HGNC                               48958     48878     <0.01    59   Organism-specific databases                
   HOGENOM                          3658839   3658792      0.13    19   Phylogenomic databases                     
   HOVERGEN                          311258    311246      0.01    39   Phylogenomic databases                     
   HSSP                              250661    250434      0.01    42   3D structure databases                     
   IPI                               309350    308676      0.01    40   Sequence databases                         
   InParanoid                        189538    189538      0.01    43   Phylogenomic databases                     
   IntAct                             16845     16845     <0.01    71   Protein-protein interaction databases      
   InterPro                        63181437  22759474      2.16     1   Family and domain databases                
   KEGG                             7902138   7711636      0.27    11   Genome annotation databases                
   KO                               3098495   3085017      0.11    21   Phylogenomic databases                     
   LegioList                           5138      5110     <0.01    78   Organism-specific databases                
   Leproma                             1272      1270     <0.01    88   Organism-specific databases                
   MEROPS                             81141     81140     <0.01    53   Protein family/group databases             
   MGI                                35077     34422     <0.01    63   Organism-specific databases                
   MINT                                8590      8590     <0.01    74   Protein-protein interaction databases      
   NextBio                           104044    103709     <0.01    50   Other                                      
   OMA                              3889766   3889385      0.13    18   Phylogenomic databases                     
   OrthoDB                           557052    557014      0.02    34   Phylogenomic databases                     
   PANTHER                          4184001   3955873      0.14    17   Family and domain databases                
   PATRIC                           8310247   8310154      0.28    10   Genome annotation databases                
   PDB                                18385     10298     <0.01    68   3D structure databases                     
   PDBsum                             18152     10143     <0.01    69   3D structure databases                     
   PHCI-2DPAGE                           99        99     <0.01    98   2D gel databases                           
   PIR                               173697    140856      0.01    46   Sequence databases                         
   PIRSF                            2516170   2515493      0.09    26   Family and domain databases                
   PMAP-CutDB                           214       214     <0.01    94   Other                                      
   PMMA-2DPAGE                            2         2     <0.01   108   2D gel databases                           
   PRIDE                             476086    476086      0.02    36   Proteomic databases                        
   PRINTS                           4469756   3973785      0.15    15   Family and domain databases                
   PROSITE                         14613027   9689583      0.50     5   Family and domain databases                
   Pathway_Interaction_DB                11         9     <0.01   106   Enzyme and pathway databases               
   PaxDb                              17042     17042     <0.01    70   Proteomic databases                        
   PeptideAtlas                         144       144     <0.01    97   Proteomic databases                        
   PeroxiBase                          2558      2550     <0.01    84   Protein family/group databases             
   Pfam                            28789057  21143842      0.98     4   Family and domain databases                
   PharmGKB                            4279      4279     <0.01    80   Organism-specific databases                
   PhosphoSite                         1167      1167     <0.01    89   PTM databases                              
   PhylomeDB                         151147    151147      0.01    47   Phylogenomic databases                     
   PomBase                               40        27     <0.01   102   Organism-specific databases                
   PptaseDB                              36        34     <0.01   103   Protein family/group databases             
   ProDom                            572760    547986      0.02    33   Family and domain databases                
   ProMEX                               268       268     <0.01    93   Proteomic databases                        
   ProtClustDB                      2720788   2720777      0.09    24   Phylogenomic databases                     
   ProteinModelPortal               7763747   7763747      0.27    12   3D structure databases                     
   PseudoCAP                           4539      4533     <0.01    79   Organism-specific databases                
   REBASE                             32949     32946     <0.01    64   Protein family/group databases             
   REPRODUCTION-2DPAGE                   84        83     <0.01    99   2D gel databases                           
   RGD                                24752     24429     <0.01    66   Organism-specific databases                
   Reactome                             209       179     <0.01    95   Enzyme and pathway databases               
   RefSeq                           8800149   8554497      0.30     8   Sequence databases                         
   SGD                                   11        11     <0.01   105   Organism-specific databases                
   SMART                            6511821   4935454      0.22    14   Family and domain databases                
   SMR                              1667955   1667955      0.06    27   3D structure databases                     
   STRING                           2588334   2588334      0.09    25   Protein-protein interaction databases      
   SUPFAM                          12032612   9897317      0.41     7   Family and domain databases                
   SWISS-2DPAGE                          28        28     <0.01   104   2D gel databases                           
   Siena-2DPAGE                           2         2     <0.01   109   2D gel databases                           
   TAIR                               15743     15666     <0.01    72   Organism-specific databases                
   TCDB                                2389      2377     <0.01    86   Protein family/group databases             
   TIGRFAMs                         6651588   6065915      0.23    13   Family and domain databases                
   TubercuList                         1991      1986     <0.01    87   Organism-specific databases                
   UCSC                               64222     64050     <0.01    58   Genome annotation databases                
   UniGene                           545475    514039      0.02    35   Sequence databases                         
   UniPathway                       1514470   1409900      0.05    28   Enzyme and pathway databases               
   VectorBase                         78249     77732     <0.01    54   Genome annotation databases                
   World-2DPAGE                         675       670     <0.01    90   2D gel databases                           
   WormBase                           42337     42219     <0.01    62   Organism-specific databases                
   Xenbase                            25586     25469     <0.01    65   Organism-specific databases                
   ZFIN                               45574     45448     <0.01    60   Organism-specific databases                
   dictyBase                           7996      7774     <0.01    76   Organism-specific databases                
   eggNOG                           2770833   2770812      0.09    23   Phylogenomic databases                     
   euHCVdb                            75267     75264     <0.01    55   Organism-specific databases                

Number of explicitly cross-referenced databases: 135


5.  AMINO ACID COMPOSITION

   5.1  Composition in percent for the complete database

   Ala (A) 8.63   Gln (Q) 3.97   Leu (L) 9.92   Ser (S) 6.65
   Arg (R) 5.42   Glu (E) 6.18   Lys (K) 5.30   Thr (T) 5.56
   Asn (N) 4.11   Gly (G) 7.08   Met (M) 2.47   Trp (W) 1.30
   Asp (D) 5.32   His (H) 2.21   Phe (F) 4.03   Tyr (Y) 3.05
   Cys (C) 1.24   Ile (I) 6.00   Pro (P) 4.67   Val (V) 6.77

   Asx (B) 0.000  Glx (Z) 0      Xaa (X) 0.03

   

   Legend: gray = aliphatic, red = acidic, green = small hydroxy,
           blue = basic, black = aromatic, white = amide, yellow = sulfur


   5.2  Classification of the amino acids by their frequency

   Leu, Ala, Gly, Val, Ser, Glu, Ile, Thr, Arg, Asp, Lys, Pro, Asn, Phe,
   Gln, Tyr, Met, His, Trp, Cys



6.  MISCELLANEOUS STATISTICS

Total number of entries encoded on a Mitochondrion: 577580
Total number of entries encoded on a Plasmid: 313599
Total number of entries encoded on a Plastid: 24319
Total number of entries encoded on a Plastid; Apicoplast: 701
Total number of entries encoded on a Plastid; Chloroplast: 212091
Total number of entries encoded on a Plastid; Cyanelle: 8
Total number of entries encoded on a Plastid; Non-photosynthetic plastid: 926