UniProtKB/TrEMBL PROTEIN DATABASE RELEASE 2013_08 STATISTICS
1. INTRODUCTION
Release 2013_08 of 24-Jul-2013 of UniProtKB/TrEMBL contains 41451118 sequence entries,
comprising 13208986710 amino acids .
1589741 sequences have been added since release 2013_07, the sequence data of
3518 existing entries has been updated and the annotations of
4454156 entries have been revised. This represents an increase of 4%.
Number of fragments: 4339045
Protein existence (PE): entries %
1: Evidence at protein level 20352 0.05%
2: Evidence at transcript level 823009 1.99%
3: Inferred from homology 8297415 20.02%
4: Predicted 32310342 77.95%
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: 426778
The first twenty species represent 1885947 sequences: 4.5 % of the
total number of entries.
2.1 Table of the frequency of occurrence of species
Species represented 1x:17611
2x:69912
3x:37768
4x:26917
5x:16093
6x:11337
7x: 8656
8x: 6834
9x: 5396
10x:10576
11- 20x:30529
21- 50x:10129
51-100x: 3919
>100x:12598
2.2 Table of the most represented species
------ --------- --------------------------------------------
Number Frequency Species
------ --------- --------------------------------------------
1 543519 Human immunodeficiency virus 1
2 199370 uncultured bacterium
3 113495 Homo sapiens (Human)
4 96864 Oryza sativa subsp. japonica (Rice)
5 88788 Hepatitis C virus
6 73836 Glycine max (Soybean) (Glycine hispida)
7 70412 Hordeum vulgare var. distichum (Two-rowed barley)
8 69137 Macaca mulatta (Rhesus macaque)
9 60526 Zea mays (Maize)
10 59640 Hepatitis B virus (HBV)
11 56466 Mus musculus (Mouse)
12 56144 Medicago truncatula (Barrel medic) (Medicago tribuloides)
13 54889 Solanum tuberosum (Potato)
14 54121 Vitis vinifera (Grape)
15 52253 Danio rerio (Zebrafish) (Brachydanio rerio)
16 50601 Trichomonas vaginalis
17 49237 Tetraodon nigroviridis (Spotted green pufferfish) (Chelonodon nigroviridis)
18 48897 Takifugu rubripes (Japanese pufferfish) (Fugu rubripes)
19 44560 Populus trichocarpa (Western balsam poplar)
20 43192 Callithrix jacchus (White-tufted-ear marmoset)
21 41389 Arabidopsis thaliana (Mouse-ear cress)
22 41203 Brassica rapa subsp. pekinensis (Chinese cabbage) (Brassica pekinensis)
23 39850 Paramecium tetraurelia
24 39838 Oryza sativa subsp. indica (Rice)
25 39300 Setaria italica (Foxtail millet) (Panicum italicum)
26 38796 Mustela putorius furo (European domestic ferret) (Mustela furo)
27 38163 human gut metagenome
28 36673 Drosophila melanogaster (Fruit fly)
29 36522 Musa acuminata subsp. malaccensis (Wild banana) (Musa malaccensis)
30 35905 Solanum lycopersicum (Tomato) (Lycopersicon esculentum)
31 35631 Ailuropoda melanoleuca (Giant panda)
32 35599 Emiliania huxleyi CCMP1516
33 35205 Acyrthosiphon pisum (Pea aphid)
34 35066 Caenorhabditis japonica
35 34927 Simian immunodeficiency virus (SIV)
36 34830 Physcomitrella patens subsp. patens (Moss)
37 34570 Thalassiosira oceanica (Marine diatom)
38 34355 Aegilops tauschii (Tausch's goatgrass) (Aegilops squarrosa)
39 33839 Sorghum bicolor (Sorghum) (Sorghum vulgare)
40 33253 Selaginella moellendorffii (Spikemoss)
41 32767 Arabidopsis lyrata subsp. lyrata (Lyre-leaved rock-cress)
42 32342 Oryza brachyantha
43 32200 Sus scrofa (Pig)
44 32122 Caenorhabditis remanei (Caenorhabditis vulgaris)
45 32094 Oryza glaberrima (African rice)
46 31849 Pan troglodytes (Chimpanzee)
47 31386 Ricinus communis (Castor bean)
48 31207 Capitella teleta
49 30921 Daphnia pulex (Water flea)
50 30300 Caenorhabditis brenneri (Nematode worm)
51 30146 Brachypodium distachyon (Purple false brome) (Trachynia distachya)
52 29815 Amphimedon queenslandica (Sponge)
53 29451 Strongylocentrotus purpuratus (Purple sea urchin)
54 29317 Pristionchus pacificus (Parasitic nematode)
55 29183 Branchiostoma floridae (Florida lancelet) (Amphioxus)
56 29054 Oikopleura dioica (Tunicate)
57 28835 Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
58 28825 Capsella rubella
59 28778 Escherichia coli
60 28613 Prunus persica (Peach) (Amygdalus persica)
61 28495 Canis familiaris (Dog) (Canis lupus familiaris)
62 28080 Gasterosteus aculeatus (Three-spined stickleback)
63 27743 Macaca fascicularis (Crab-eating macaque) (Cynomolgus monkey)
64 27504 Oreochromis niloticus (Nile tilapia) (Tilapia nilotica)
65 27454 Equus caballus (Horse)
66 27089 Gorilla gorilla gorilla (Lowland gorilla)
67 26824 Crassostrea gigas (Pacific oyster) (Crassostrea angulata)
68 25964 Oryzias latipes (Medaka fish) (Japanese ricefish)
69 25796 Loxodonta africana (African elephant)
70 25724 Rattus norvegicus (Rat)
71 25721 Phytophthora sojae (strain P6497) (Soybean stem and root rot agent)
72 25652 Bos taurus (Bovine)
73 25092 Oryctolagus cuniculus (Rabbit)
74 24905 Nematostella vectensis (Starlet sea anemone)
75 24643 Tetrahymena thermophila (strain SB210)
76 24590 Guillardia theta CCMP2712
77 24374 Triticum urartu (Red wild einkorn) (Crithodium urartu)
78 24208 Cricetulus griseus (Chinese hamster) (Cricetulus barabensis griseus)
79 23716 Ornithorhynchus anatinus (Duckbill platypus)
80 23565 Oxytricha trifallax
81 23502 Latimeria chalumnae (West Indian ocean coelacanth)
82 23115 Perkinsus marinus (strain ATCC 50983 / TXsc)
83 22750 Monodelphis domestica (Gray short-tailed opossum)
84 22562 Sarcophilus harrisii (Tasmanian devil) (Sarcophilus laniarius)
85 22546 Caenorhabditis elegans
86 22313 Pongo abelii (Sumatran orangutan) (Pongo pygmaeus abelii)
87 22163 gut metagenome
88 21548 Heterocephalus glaber (Naked mole rat)
89 21346 Caenorhabditis briggsae
90 21309 Gallus gallus (Chicken)
91 21106 Ixodes scapularis (Black-legged tick) (Deer tick)
92 20937 Felis catus (Cat) (Felis silvestris catus)
93 20867 Myotis lucifugus (Little brown bat)
94 20838 Tupaia chinensis (Chinese tree shrew)
95 20758 Pelodiscus sinensis (Chinese softshell turtle) (Trionyx sinensis)
96 20512 Xiphophorus maculatus (Southern platyfish) (Platypoecilus maculatus)
97 20133 Otolemur garnettii (Small-eared galago) (Garnett's greater bushbaby)
98 20114 Ciona savignyi (Pacific transparent sea squirt)
99 20072 Cavia porcellus (Guinea pig)
100 19985 Spermophilus tridecemlineatus (Thirteen-lined ground squirrel)
101 19816 Nomascus leucogenys (Northern white-cheeked gibbon) (Hylobates leucogenys)
102 19684 Taeniopygia guttata (Zebra finch) (Poephila guttata)
103 19551 Anolis carolinensis (Green anole) (American chameleon)
104 19544 Pteropus alecto (Black flying fox)
105 19438 Wuchereria bancrofti
106 19334 Toxoplasma gondii
107 19200 Trypanosoma cruzi (strain CL Brener)
108 19057 Chelonia mydas (Green sea-turtle) (Chelonia agassizi)
109 18946 Culex quinquefasciatus (Southern house mosquito) (Culex pungens)
110 18855 Drosophila simulans (Fruit fly)
111 18771 mine drainage metagenome
112 18592 Ciona intestinalis (Transparent sea squirt) (Ascidia intestinalis)
113 18555 Bos grunniens mutus
114 18121 Atta cephalotes (Leafcutter ant)
115 18024 Anopheles gambiae (African malaria mosquito)
116 17839 Laccaria bicolor (strain S238N-H82 / ATCC MYA-4686) (Bicoloured deceiver)
117 17784 Fusarium oxysporum (strain Fo5176) (Panama disease fungus)
118 17599 Phytophthora infestans (strain T30-4) (Potato late blight fungus)
119 17518 Bombyx mori (Silk moth)
120 17412 Aedes aegypti (Yellowfever mosquito) (Culex aegypti)
121 17296 Anas platyrhynchos (Domestic duck) (Anas boschas)
122 17282 Nasonia vitripennis (Parasitic wasp)
123 17046 Tribolium castaneum (Red flour beetle)
124 17040 Drosophila yakuba (Fruit fly)
125 16946 Rhizopus delemar (strain RA 99-880 / ATCC MYA-4621 / FGSC 9543 / NRRL 43880)
126 16914 Meleagris gallopavo (Common turkey)
127 16714 Drosophila persimilis (Fruit fly)
128 16698 Drosophila pseudoobscura pseudoobscura (Fruit fly)
129 16643 Fusarium oxysporum f. sp. lycopersici
130 16638 Plasmodium falciparum
131 16469 Hepatitis C virus subtype 1b
132 16426 Ectocarpus siliculosus (Brown alga)
133 16338 Botryotinia fuckeliana (strain T4) (Noble rot fungus) (Botrytis cinerea)
134 16329 Danaus plexippus (Monarch butterfly)
135 16274 Trichinella spiralis (Trichina worm)
136 16237 Melampsora larici-populina (strain 98AG31 / pathotype 3-4-7)
137 16188 Drosophila sechellia (Fruit fly)
138 16156 Schistosoma japonicum (Blood fluke)
139 16110 Colletotrichum higginsianum (strain IMI 349063) (Crucifer anthracnose fungus)
140 15793 Puccinia graminis f. sp. tritici (strain CRL 75-36-700-3 / race SCCL)
141 15762 Phaeosphaeria nodorum (strain SN15 / ATCC MYA-4574 / FGSC 10173)
142 15716 Naegleria gruberi (Amoeba)
143 15653 Nectria haematococca (strain 77-13-4 / ATCC MYA-4622 / FGSC 9596 / MPVI)
144 15568 Phytophthora ramorum (Sudden oak death agent)
145 15461 Myotis davidii (David's myotis)
146 15421 Drosophila willistoni (Fruit fly)
147 15371 Colletotrichum gloeosporioides (strain Nara gc5) (Anthracnose fungus)
148 15354 Loa loa (Eye worm) (Filaria loa)
149 15345 Fusarium oxysporum f. sp. cubense race 1
150 15225 Pythium ultimum
151 15177 Hepatitis C virus subtype 1a
152 15144 Drosophila ananassae (Fruit fly)
153 15041 Harpegnathos saltator (Jerdon's jumping ant)
154 14942 Acanthamoeba castellanii str. Neff
155 14927 Drosophila erecta (Fruit fly)
156 14910 Dendroctonus ponderosae (mountain pine beetle)
157 14858 Chlamydomonas reinhardtii (Chlamydomonas smithii)
158 14853 Klebsiella pneumoniae
159 14801 Camponotus floridanus (Florida carpenter ant)
160 14791 Drosophila mojavensis (Fruit fly)
161 14713 Plasmodium chabaudi
162 14704 Drosophila virilis (Fruit fly)
163 14652 Drosophila grimshawi (Fruit fly) (Idiomyia grimshawi)
164 14610 Gaeumannomyces graminis var. tritici (strain R3-111a-1)
165 14417 Volvox carteri (Green alga)
166 14341 Solenopsis invicta (Red imported fire ant) (Solenopsis wagneri)
167 14339 Serpula lacrymans var. lacrymans (strain S7.3) (Dry rot fungus)
168 14265 uncultured archaeon
169 14236 Sclerotinia sclerotiorum (strain ATCC 18683 / 1980 / Ss-1) (White mold)
170 14147 Fusarium oxysporum f. sp. cubense race 4
171 13970 Acromyrmex echinatior (Panamanian leafcutter ant)
172 13923 Hyaloperonospora arabidopsidis (strain Emoy2) (Downy mildew agent)
173 13900 Rabies virus
174 13876 Clonorchis sinensis (Chinese liver fluke)
175 13867 Phanerochaete carnosa (strain HHB-10118-sp) (White-rot fungus)
176 13801 Macrophomina phaseolina (strain MS6) (Charcoal rot fungus)
177 13766 Aspergillus niger (strain CBS 513.88 / FGSC A1513)
178 13648 Moniliophthora perniciosa (strain FA553 / isolate CP02)
179 13588 Trypanosoma cruzi
180 13345 Aspergillus flavus
181 13336 Colletotrichum orbiculare
182 13267 Coprinopsis cinerea (strain Okayama-7 / 130 / ATCC MYA-4618 / FGSC 9003)
183 13121 Schizophyllum commune (strain H4-8 / FGSC 9210) (Split gill fungus)
184 13062 Pseudocercospora fijiensis CIRAD86
185 13043 Magnaporthe oryzae (strain 70-15 / ATCC MYA-4617 / FGSC 8958)
186 12983 Albugo laibachii Nc14
187 12962 Talaromyces stipitatus (strain ATCC 10500 / CBS 375.48 / QM 6759 / NRRL 1006)
188 12950 Stigmatella aurantiaca (strain DW4/3-1)
189 12900 Gibberella zeae (strain PH-1 / ATCC MYA-4620 / FGSC 9075 / NRRL 31084)
190 12858 Magnaporthe oryzae Y34
191 12857 Bipolaris maydis C5
192 12754 Porcine reproductive and respiratory syndrome virus (PRRSV)
193 12722 Serpula lacrymans var. lacrymans (strain S7.9) (Dry rot fungus)
194 12711 Magnaporthe oryzae P131
195 12705 Bipolaris maydis ATCC 48331
196 12697 Penicillium chrysogenum (strain ATCC 28089 / DSM 1075 / Wisconsin 54-1255)
197 12696 Trypanosoma congolense (strain IL3000)
198 12681 Schistosoma mansoni (Blood fluke)
199 12629 Xenopus laevis (African clawed frog)
200 12586 Leptosphaeria maculans (strain JN3 / isolate v23.1.3 / race Av1-4-5-6-7-8)
201 12447 Fusarium pseudograminearum (strain CS3096) (Wheat and barley crown-rot fungus)
202 12440 Polysphondylium pallidum (Cellular slime mold)
203 12414 Dothistroma septosporum NZE10
204 12389 Hypocrea virens (strain Gv29-8 / FGSC 10586) (Gliocladium virens)
205 12352 Dictyostelium purpureum (Slime mold)
206 12342 Helicobacter pylori (Campylobacter pylori)
207 12197 Rhizoctonia solani AG-1 IB
208 12174 Bipolaris sorokiniana ND90Pr
209 12152 Dictyostelium fasciculatum (strain SH3) (Slime mold)
210 12078 Ceriporiopsis subvermispora B
211 12011 Apis mellifera (Honeybee)
212 11994 Pyrenophora tritici-repentis (strain Pt-1C-BFP) (Wheat tan spot fungus)
213 11993 Colletotrichum graminicola (strain M1.001 / M2 / FGSC 10212)
214 11941 Emericella nidulans
215 11815 Hypocrea atroviridis (strain ATCC 20476 / IMI 206040) (Trichoderma atroviride)
216 11780 Piriformospora indica (strain DSM 11827)
217 11752 Chondrocladia sp. SMF
2.3 Taxonomic distribution of the sequences
Kingdom sequences (% of the database)
Archaea 689097 ( 2%)
Bacteria 30768592 ( 74%)
Eukaryota 8131770 ( 20%)
Viruses 1757465 ( 4%)
Other 104193 ( <1%)
Within Eukaryota:
Category sequences (% of Eukaryota) (% of the complete database)
Human 113531 ( 1%) ( 0%)
Other Mammalia 973886 ( 12%) ( 2%)
Other Vertebrata 839696 ( 10%) ( 2%)
Viridiplantae 1673209 ( 21%) ( 4%)
Fungi 1945973 ( 24%) ( 5%)
Insecta 844097 ( 10%) ( 2%)
Nematoda 253392 ( 3%) ( 1%)
Other 1487986 ( 18%) ( 4%)
3. SEQUENCE SIZE
Repartition of the sequences by size (excluding fragments)
From To Number From To Number
1- 50 1113998 1001-1100 227576
51- 100 3690225 1101-1200 158051
101- 150 4121105 1201-1300 113566
151- 200 3994933 1301-1400 68370
201- 250 4028228 1401-1500 56584
251- 300 3900661 1501-1600 38678
301- 350 3531654 1601-1700 28177
351- 400 2646190 1701-1800 21265
401- 450 2297592 1801-1900 17222
451- 500 1881256 1901-2000 14513
501- 550 1206951 2001-2100 11709
551- 600 931990 2101-2200 11894
601- 650 680692 2201-2300 9158
651- 700 535568 2301-2400 7383
701- 750 446145 2401-2500 6512
751- 800 384630 >2500 49973
801- 850 299029
851- 900 267011
901- 950 183691
951-1000 129893
The average sequence length in UniProtKB/TrEMBL is 318 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) 49170975 1.19
Submitted to EMBL/GenBank/DDBJ 28877412 27158547 0.70
Journal 18532072 17524570 0.45
Submitted to other databases 1744448 1733538 0.04
Thesis 10306 10248 <0.01
Book citation 6736 6686 <0.01
Patent 1 1 <0.01
Total number of distinct authors cited in UniProtKB/TrEMBL: 473993
Total Number of Average
Line type / subtype number entries per entry Rank
--------------------------------- -------- --------- --------- ----
Comments (CC) 51904431 1.25
CATALYTIC ACTIVITY 3911040 3509952 0.09 4
CAUTION 23311857 23295569 0.56 1
COFACTOR 1536560 1425126 0.04 8
DOMAIN 159005 152928 <0.01 9
FUNCTION 4361169 4105568 0.11 3
INTERACTION 1251 1251 <0.01 11
MISCELLANEOUS 101948 101752 <0.01 10
PATHWAY 1929435 1756052 0.05 7
SIMILARITY 10962690 9531540 0.26 2
SUBCELLULAR LOCATION 3421038 3301047 0.08 5
SUBUNIT 2208438 2185108 0.05 6
Total number of comment topics: 11
Total Number of Average
Line type / subtype number entries per entry Rank
--------------------------------- -------- --------- --------- ----
Features (FT) 8333857 0.20
CHAIN 869404 710847 0.02 2
NON_TER 6773824 4340809 0.16 1
SIGNAL 689228 685955 0.02 3
TRANSIT 1401 1401 <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) 418778244 10.10
Allergome 3461 2831 <0.01 84 Protein family/group databases
ArachnoServer 66 66 <0.01 101 Organism-specific databases
ArrayExpress 195540 195540 <0.01 44 Gene expression databases
BRENDA 2648 2619 <0.01 86 Enzyme and pathway databases
Bgee 99908 99908 <0.01 51 Gene expression databases
BindingDB 5826 5826 <0.01 77 Other
BioCyc 5640234 5572915 0.14 16 Enzyme and pathway databases
CAZy 74012 69539 <0.01 55 Protein family/group databases
CGD 7033 7033 <0.01 76 Organism-specific databases
COMPLUYEAST-2DPAGE 4 4 <0.01 107 2D gel databases
CTD 352099 350775 0.01 37 Organism-specific databases
ChEMBL 607 607 <0.01 93 Other
ChiTaRS 65948 65948 <0.01 56 Other
ConoServer 160 160 <0.01 98 Organism-specific databases
DIP 2878 2873 <0.01 85 Protein-protein interaction databases
DNASU 42342 42008 <0.01 62 Protocols and materials databases
EMBL 44611291 40431685 1.08 3 Sequence databases
Ensembl 1002552 988095 0.02 29 Genome annotation databases
EnsemblBacteria 17882907 17609037 0.43 5 Genome annotation databases
EnsemblFungi 351526 349532 0.01 38 Genome annotation databases
EnsemblMetazoa 676337 661010 0.02 33 Genome annotation databases
EnsemblPlants 654222 620702 0.02 34 Genome annotation databases
EnsemblProtists 156294 153898 <0.01 47 Genome annotation databases
EuPathDB 147113 147111 <0.01 49 Organism-specific databases
EvolutionaryTrace 8053 8053 <0.01 74 Other
FlyBase 196133 194665 <0.01 43 Organism-specific databases
GO 72922214 23638969 1.76 2 Ontologies
Gene3D 16160011 12753815 0.39 8 Family and domain databases
GeneID 9859724 9601683 0.24 11 Genome annotation databases
GeneTree 900068 900008 0.02 31 Phylogenomic databases
Genevestigator 86540 86534 <0.01 52 Gene expression databases
GenoList 14733 14460 <0.01 72 Organism-specific databases
GenomeRNAi 19569 19568 <0.01 69 Other
Gramene 204056 204056 <0.01 42 Organism-specific databases
H-InvDB 614 467 <0.01 92 Organism-specific databases
HAMAP 3751883 3704375 0.09 20 Family and domain databases
HGNC 47526 47455 <0.01 59 Organism-specific databases
HOGENOM 3654171 3654126 0.09 21 Phylogenomic databases
HOVERGEN 305496 305485 0.01 39 Phylogenomic databases
IPI 280051 279160 0.01 40 Sequence databases
InParanoid 186582 186582 <0.01 45 Phylogenomic databases
IntAct 17273 17273 <0.01 70 Protein-protein interaction databases
InterPro 77993391 27382046 1.88 1 Family and domain databases
KEGG 8769565 8555102 0.21 12 Genome annotation databases
KO 3578882 3561857 0.09 22 Phylogenomic databases
LegioList 5138 5110 <0.01 79 Organism-specific databases
Leproma 1272 1270 <0.01 88 Organism-specific databases
MEROPS 138764 138763 <0.01 50 Protein family/group databases
MGI 51779 51463 <0.01 58 Organism-specific databases
MINT 10264 10263 <0.01 73 Protein-protein interaction databases
NextBio 208912 208907 0.01 41 Other
OMA 4858421 4858204 0.12 19 Phylogenomic databases
OrthoDB 553206 553163 0.01 35 Phylogenomic databases
PANTHER 5196425 4894508 0.13 18 Family and domain databases
PATRIC 8286168 8286051 0.20 13 Genome annotation databases
PDB 20016 11115 <0.01 67 3D structure databases
PDBsum 19749 10919 <0.01 68 3D structure databases
PIR 172390 139562 <0.01 46 Sequence databases
PIRSF 3157576 3154380 0.08 23 Family and domain databases
PMAP-CutDB 209 209 <0.01 96 Other
PRIDE 930025 930025 0.02 30 Proteomic databases
PRINTS 5289728 4728545 0.13 17 Family and domain databases
PROSITE 17532395 11642430 0.42 6 Family and domain databases
Pathway_Interaction_DB 10 8 <0.01 106 Enzyme and pathway databases
PaxDb 29088 29086 <0.01 64 Proteomic databases
PeptideAtlas 129 129 <0.01 99 Proteomic databases
PeroxiBase 2596 2588 <0.01 87 Protein family/group databases
Pfam 34831380 25528635 0.84 4 Family and domain databases
PharmGKB 3589 3589 <0.01 83 Organism-specific databases
PhosphoSite 1128 1128 <0.01 89 PTM databases
PhylomeDB 147299 147299 <0.01 48 Phylogenomic databases
PomBase 40 27 <0.01 102 Organism-specific databases
PptaseDB 36 35 <0.01 103 Protein family/group databases
ProDom 704398 676902 0.02 32 Family and domain databases
ProMEX 5235 5235 <0.01 78 Proteomic databases
ProtClustDB 2719644 2719633 0.07 26 Phylogenomic databases
ProteinModelPortal 9871281 9871281 0.24 10 3D structure databases
PseudoCAP 4533 4527 <0.01 80 Organism-specific databases
REBASE 39313 39305 <0.01 63 Protein family/group databases
REPRODUCTION-2DPAGE 66 65 <0.01 100 2D gel databases
RGD 21083 20192 <0.01 66 Organism-specific databases
Reactome 180 145 <0.01 97 Enzyme and pathway databases
RefSeq 9900105 9609735 0.24 9 Sequence databases
SABIO-RK 481 481 <0.01 94 Enzyme and pathway databases
SGD 11 11 <0.01 105 Organism-specific databases
SMART 7772333 5889972 0.19 15 Family and domain databases
SMR 2608329 2608329 0.06 27 3D structure databases
STRING 2903996 2903927 0.07 24 Protein-protein interaction databases
SUPFAM 16314232 13168694 0.39 7 Family and domain databases
SWISS-2DPAGE 28 28 <0.01 104 2D gel databases
SignaLink 4406 4404 <0.01 81 Enzyme and pathway databases
TAIR 15255 15182 <0.01 71 Organism-specific databases
TCDB 4242 4234 <0.01 82 Protein family/group databases
TIGRFAMs 8254802 7533766 0.20 14 Family and domain databases
TubercuList 1102 1101 <0.01 90 Organism-specific databases
UCSC 57998 57854 <0.01 57 Genome annotation databases
UniGene 551507 521841 0.01 36 Sequence databases
UniPathway 1599601 1489114 0.04 28 Enzyme and pathway databases
VectorBase 78249 77732 <0.01 53 Genome annotation databases
World-2DPAGE 673 668 <0.01 91 2D gel databases
WormBase 42540 42367 <0.01 61 Organism-specific databases
Xenbase 25581 25512 <0.01 65 Organism-specific databases
ZFIN 45657 45091 <0.01 60 Organism-specific databases
dictyBase 7996 7774 <0.01 75 Organism-specific databases
eggNOG 2768423 2768403 0.07 25 Phylogenomic databases
euHCVdb 75267 75264 <0.01 54 Organism-specific databases
mycoCLAP 422 422 <0.01 95 Protein family/group databases
Number of explicitly cross-referenced databases: 128
5. AMINO ACID COMPOSITION
5.1 Composition in percent for the complete database
Ala (A) 8.64 Gln (Q) 3.98 Leu (L) 9.94 Ser (S) 6.55
Arg (R) 5.36 Glu (E) 6.23 Lys (K) 5.33 Thr (T) 5.55
Asn (N) 4.12 Gly (G) 7.08 Met (M) 2.49 Trp (W) 1.28
Asp (D) 5.33 His (H) 2.19 Phe (F) 4.05 Tyr (Y) 3.08
Cys (C) 1.20 Ile (I) 6.09 Pro (P) 4.57 Val (V) 6.79
Asx (B) 0.000 Glx (Z) 0 Xaa (X) 0.02
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: 636914
Total number of entries encoded on a Plasmid: 347429
Total number of entries encoded on a Plastid: 26708
Total number of entries encoded on a Plastid; Apicoplast: 750
Total number of entries encoded on a Plastid; Chloroplast: 235505
Total number of entries encoded on a Plastid; Cyanelle: 8
Total number of entries encoded on a Plastid; Non-photosynthetic plastid: 1031
