UniProtKB/Swiss-Prot protein knowledgebase release 2021_02 statistics
1. INTRODUCTION
Release 2021_02 of 07-Apr-21 of UniProtKB/Swiss-Prot contains 564638 sequence entries,
comprising 203519613 amino acids abstracted from 278054 references.
373 sequences have been added since release 2021_01, the sequence data of
43 existing entries has been updated and the annotations of
245770 entries have been revised.
Number of fragments: 9236
Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 40503
Protein existence (PE): entries %
1: Evidence at protein level 106358 18.8%
2: Evidence at transcript level 56264 10%
3: Inferred from homology 386874 68.5%
4: Predicted 13298 2.4%
5: Uncertain 1844 0.3%
The growth of the database is summarized below.
2. TAXONOMIC ORIGIN
Total number of species represented in this release of UniProtKB/Swiss-Prot: 14051
The first twenty species represent 121714 sequences: 21.6 % of the total
number of entries.
2.1 Table of the frequency of occurrence of species
Species represented 1x: 5752
2x: 2030
3x: 1090
4x: 724
5x: 513
6x: 425
7x: 320
8x: 257
9x: 231
10x: 139
11- 20x: 820
21- 50x: 471
51-100x: 224
>100x: 1055
2.2 Table of the most represented species
------ --------- --------------------------------------------
Number Frequency Species
------ --------- --------------------------------------------
1 20395 Homo sapiens (Human)
2 17073 Mus musculus (Mouse)
3 16043 Arabidopsis thaliana (Mouse-ear cress)
4 8125 Rattus norvegicus (Rat)
5 6721 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
6 6014 Bos taurus (Bovine)
7 5137 Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
8 4518 Escherichia coli (strain K12)
9 4226 Caenorhabditis elegans
10 4191 Bacillus subtilis (strain 168)
11 4150 Dictyostelium discoideum (Slime mold)
12 4112 Oryza sativa subsp. japonica (Rice)
13 3632 Drosophila melanogaster (Fruit fly)
14 3471 Xenopus laevis (African clawed frog)
15 3196 Danio rerio (Zebrafish) (Brachydanio rerio)
16 2297 Gallus gallus (Chicken)
17 2255 Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
18 2218 Pongo abelii (Sumatran orangutan) (Pongo pygmaeus abelii)
19 2042 Escherichia coli O157:H7
20 1898 Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)
21 1804 Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
22 1787 Methanocaldococcus jannaschii
23 1707 Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
24 1705 Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
25 1701 Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)
26 1685 Shigella flexneri
27 1438 Sus scrofa (Pig)
28 1399 Pseudomonas aeruginosa
29 1347 Salmonella typhi
30 1244 Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97)
31 1174 Macaca fascicularis (Crab-eating macaque) (Cynomolgus monkey)
32 1079 Synechocystis sp. (strain PCC 6803 / Kazusa)
33 1030 Archaeoglobus fulgidus
34 1026 Yersinia pestis
35 1014 Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)
36 988 Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
37 978 Emericella nidulans
38 941 Staphylococcus aureus (strain Mu50 / ATCC 700699)
39 930 Salmonella paratyphi A (strain ATCC 9150 / SARB42)
40 929 Staphylococcus aureus (strain N315)
41 928 Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056)
42 919 Kluyveromyces lactis
43 909 Acanthamoeba polyphaga mimivirus (APMV)
44 903 Staphylococcus aureus (strain COL)
45 896 Staphylococcus aureus (strain MW2)
46 894 Oryctolagus cuniculus (Rabbit)
47 894 Escherichia coli O6:K15:H31 (strain 536 / UPEC)
48 890 Staphylococcus aureus (strain MSSA476)
49 888 Staphylococcus aureus (strain MRSA252)
50 885 Rhizobium meliloti (strain 1021) (Ensifer meliloti) (Sinorhizobium meliloti)
51 882 Salmonella choleraesuis (strain SC-B67)
52 879 Shigella sonnei (strain Ss046)
53 878 Candida glabrata
54 875 Neurospora crassa
55 863 Yersinia pseudotuberculosis serotype I (strain IP32953)
56 848 Oryza sativa subsp. indica (Rice)
57 841 Escherichia coli O9:H4 (strain HS)
58 834 Escherichia coli O139:H28 (strain E24377A / ETEC)
59 833 Canis lupus familiaris (Dog) (Canis familiaris)
60 833 Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100)
61 833 Zea mays (Maize)
62 829 Shigella boydii serotype 4 (strain Sb227)
63 825 Escherichia coli (strain UTI89 / UPEC)
64 822 Shigella dysenteriae serotype 1 (strain Sd197)
65 819 Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks)
66 808 Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)
67 803 Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672)
68 800 Staphylococcus aureus (strain NCTC 8325 / PS 47)
69 793 Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
70 791 Escherichia coli (strain SMS-3-5 / SECEC)
71 787 Aquifex aeolicus (strain VF5)
72 771 Escherichia coli O127:H6 (strain E2348/69 / EPEC)
73 771 Escherichia coli (strain K12 / DH10B)
74 770 Pasteurella multocida (strain Pm70)
75 765 Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC)
76 765 Escherichia coli (strain K12 / MC4100 / BW2952)
77 762 Escherichia coli (strain 55989 / EAEC)
78 761 Escherichia coli O8 (strain IAI1)
79 760 Staphylococcus epidermidis (strain ATCC 12228 / FDA PCI 1200)
80 760 Staphylococcus epidermidis (strain ATCC 35984 / RP62A)
81 760 Shigella flexneri serotype 5b (strain 8401)
82 758 Escherichia coli O45:K1 (strain S88 / ExPEC)
83 756 Escherichia coli (strain SE11)
84 756 Bacillus anthracis
85 753 Escherichia coli O7:K1 (strain IAI39 / ExPEC)
86 748 Photorhabdus laumondii subsp. laumondii (strain DSM 15139 / CIP 105565 / TT01)
87 748 Escherichia coli O157:H7 (strain EC4115 / EHEC)
88 742 Bacillus halodurans
89 739 Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 8081)
90 733 Vibrio vulnificus (strain CMCP6)
91 731 Escherichia coli O81 (strain ED1a)
92 725 Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)
93 722 Salmonella enteritidis PT4 (strain P125109)
94 718 Vibrio vulnificus (strain YJ016)
95 716 Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7)
96 715 Yersinia pestis bv. Antiqua (strain Nepal516)
97 715 Enterobacter sp. (strain 638)
98 715 Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)
99 714 Escherichia coli O1:K1 / APEC
100 714 Salmonella paratyphi A (strain AKU_12601)
101 713 Yersinia pseudotuberculosis serotype O:1b (strain IP 31758)
102 713 Salmonella newport (strain SL254)
103 713 Salmonella agona (strain SL483)
104 712 Salmonella schwarzengrund (strain CVM19633)
105 711 Yersinia pestis bv. Antiqua (strain Antiqua)
106 710 Salmonella heidelberg (strain SL476)
107 702 Salmonella dublin (strain CT_02021853)
108 699 Klebsiella pneumoniae (strain 342)
109 698 Shigella boydii serotype 18 (strain CDC 3083-94 / BS512)
110 697 Nostoc sp. (strain PCC 7120 / SAG 25.82 / UTEX 2576)
111 695 Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73)
112 692 Pan troglodytes (Chimpanzee)
113 686 Mycoplasma pneumoniae (strain ATCC 29342 / M129)
114 686 Escherichia coli
115 684 Salmonella gallinarum (strain 287/91 / NCTC 13346)
116 680 Pseudomonas syringae pv. tomato (strain ATCC BAA-871 / DC3000)
117 678 Citrobacter koseri (strain ATCC BAA-895 / CDC 4225-83 / SGSC4696)
118 677 Staphylococcus aureus (strain USA300)
119 672 Serratia proteamaculans (strain 568)
120 669 Mycobacterium leprae (strain TN)
121 668 Bacillus cereus
122 667 Yersinia pestis (strain Pestoides F)
123 665 Yarrowia lipolytica (strain CLIB 122 / E 150) (Yeast) (Candida lipolytica)
124 664 Bradyrhizobium diazoefficiens
125 657 Sinorhizobium fredii (strain NBRC 101917 / NGR234)
126 653 Debaryomyces hansenii
127 652 Shewanella oneidensis (strain MR-1)
128 651 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)
131 641 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)
134 622 Treponema pallidum (strain Nichols)
135 622 Methanothermobacter thermautotrophicus
136 621 Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)
137 615 Xanthomonas campestris pv. campestris
138 614 Staphylococcus haemolyticus (strain JCSC1435)
139 613 Mesorhizobium japonicum (Mesorhizobium loti
140 612 Pseudomonas aeruginosa (strain UCBPP-PA14)
141 608 Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
142 603 Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)
143 603 Ralstonia solanacearum (strain GMI1000) (Pseudomonas solanacearum)
144 602 Staphylococcus saprophyticus subsp. saprophyticus
145 602 Photobacterium profundum (strain SS9)
146 601 Salmonella paratyphi C (strain RKS4594)
147 600 Yersinia pestis bv. Antiqua (strain Angola)
148 595 Bacillus cereus (strain ATCC 10987 / NRS 248)
149 591 Pectobacterium carotovorum subsp. carotovorum (strain PC1)
150 584 Rickettsia prowazekii (strain Madrid E)
151 583 Neisseria meningitidis serogroup B (strain MC58)
152 579 Caenorhabditis briggsae
153 579 Brucella suis biovar 1 (strain 1330)
154 575 Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)
155 574 Brucella melitensis biotype 1 (strain 16M / ATCC 23456 / NCTC 10094)
156 573 Aliivibrio fischeri (strain ATCC 700601 / ES114) (Vibrio fischeri)
157 573 Caulobacter vibrioides (strain ATCC 19089 / CB15) (Caulobacter crescentus)
158 572 Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS)
159 569 Bacillus thuringiensis subsp. konkukian (strain 97-27)
160 568 Helicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99)
161 567 Pseudomonas syringae pv. syringae (strain B728a)
162 564 Bacillus licheniformis
163 562 Buchnera aphidicola subsp. Schizaphis graminum (strain Sg)
164 562 Bacillus cereus (strain ZK / E33L)
165 561 Aspergillus oryzae (strain ATCC 42149 / RIB 40) (Yellow koji mold)
166 559 Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
167 559 Clostridium acetobutylicum
168 557 Xanthomonas axonopodis pv. citri (strain 306)
169 555 Pseudomonas fluorescens (strain Pf0-1)
170 554 Neisseria meningitidis serogroup A / serotype 4A (strain DSM 15465 / Z2491)
171 554 Pseudomonas fluorescens (strain ATCC BAA-477 / NRRL B-23932 / Pf-5)
172 553 Oceanobacillus iheyensis
173 547 Pseudomonas savastanoi pv. phaseolicola (Pseudomonas syringae pv. phaseolicola
174 540 Lactococcus lactis subsp. lactis (strain IL1403) (Streptococcus lactis)
175 534 Corynebacterium glutamicum
176 531 Erwinia tasmaniensis (strain DSM 17950 / CIP 109463 / Et1/99)
177 529 Sodalis glossinidius (strain morsitans)
178 529 Listeria monocytogenes serotype 4b (strain F2365)
179 528 Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50)
180 524 Staphylococcus aureus (strain Newman)
181 522 Xylella fastidiosa (strain 9a5c)
182 521 Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)
183 519 Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 / JCM 12185 / C2A)
184 517 Chromobacterium violaceum
185 516 Deinococcus radiodurans
186 516 Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251)
187 515 Xylella fastidiosa (strain Temecula1 / ATCC 700964)
188 514 Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)
189 512 Pseudomonas aeruginosa (strain PA7)
190 511 Streptomyces avermitilis
191 510 Geobacillus kaustophilus (strain HTA426)
192 510 Haemophilus ducreyi (strain 35000HP / ATCC 700724)
193 508 Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253)
194 507 Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp)
195 502 Pseudomonas entomophila (strain L48)
196 502 Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
197 499 Haemophilus influenzae (strain 86-028NP)
198 499 Brucella abortus biovar 1 (strain 9-941)
199 498 Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1)
200 496 Burkholderia pseudomallei (strain K96243)
201 496 Bacillus clausii (strain KSM-K16)
202 496 Rickettsia conorii (strain ATCC VR-613 / Malish 7)
203 494 Proteus mirabilis (strain HI4320)
204 494 Xanthomonas campestris pv. campestris (strain 8004)
205 494 Pyrococcus horikoshii
206 492 Bacillus velezensis (strain DSM 23117 / BGSC 10A6 / FZB42)
207 492 Thermosynechococcus elongatus (strain BP-1)
208 491 Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1)
209 491 Vibrio campbellii (strain ATCC BAA-1116 / BB120)
210 489 Solanum lycopersicum (Tomato) (Lycopersicon esculentum)
211 488 Methanosarcina mazei
212 488 Brucella abortus (strain 2308)
213 487 Synechococcus elongatus (strain PCC 7942 / FACHB-805) (Anacystis nidulans R2)
214 487 Shewanella sp. (strain MR-7)
215 486 Mannheimia succiniciproducens (strain MBEL55E)
216 484 Staphylococcus aureus (strain Mu3 / ATCC 700698)
217 484 Pseudomonas aeruginosa (strain LESB58)
218 484 Shewanella sp. (strain MR-4)
219 483 Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195)
220 483 Streptococcus pneumoniae (strain ATCC BAA-255 / R6)
221 482 Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
222 480 Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)
223 478 Nicotiana tabacum (Common tobacco)
224 478 Pseudomonas putida (strain ATCC 700007 / DSM 6899 / BCRC 17059 / F1)
225 477 Pyrococcus abyssi (strain GE5 / Orsay)
226 475 Cupriavidus necator
227 475 Burkholderia lata
228 472 Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)
229 469 Rhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)
230 468 Clostridium perfringens (strain 13 / Type A)
231 468 Pseudomonas putida (strain GB-1)
232 467 Shewanella frigidimarina (strain NCIMB 400)
233 467 Aeromonas hydrophila subsp. hydrophila
234 467 Campylobacter jejuni subsp. jejuni serotype O:2
235 467 Enterococcus faecalis (strain ATCC 700802 / V583)
236 466 Shewanella sp. (strain ANA-3)
237 466 Xanthomonas campestris pv. vesicatoria (strain 85-10)
238 465 Trichormus variabilis (strain ATCC 29413 / PCC 7937) (Anabaena variabilis)
239 463 Burkholderia mallei (strain ATCC 23344)
240 459 Cupriavidus pinatubonensis (strain JMP 134 / LMG 1197) (Cupriavidus necator
241 459 Ovis aries (Sheep)
242 458 Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath)
243 457 Rickettsia felis (strain ATCC VR-1525 / URRWXCal2) (Rickettsia azadi)
244 455 Staphylococcus aureus (strain JH1)
245 455 Xanthomonas oryzae pv. oryzae (strain MAFF 311018)
246 455 Shewanella baltica (strain OS185)
247 453 Streptococcus mutans serotype c (strain ATCC 700610 / UA159)
248 453 Pseudomonas putida (strain W619)
249 452 Aeromonas salmonicida (strain A449)
250 451 Caldanaerobacter subterraneus subsp. tengcongensis
2.3 Taxonomic distribution of the sequences
Kingdom sequences (% of the database)
Archaea 19638 ( 3%)
Bacteria 334967 ( 59%)
Eukaryota 193019 ( 34%)
Viruses 17014 ( 3%)
Within Eukaryota:
Category sequences (% of Eukaryota) (% of the complete database)
Human 20396 ( 11%) ( 4%)
Other Mammalia 47002 ( 24%) ( 8%)
Other Vertebrata 18634 ( 10%) ( 3%)
Viridiplantae 40799 ( 21%) ( 7%)
Fungi 35153 ( 18%) ( 6%)
Insecta 9425 ( 5%) ( 2%)
Nematoda 5135 ( 3%) ( 1%)
Other 16475 ( 9%) ( 3%)
3. SEQUENCE SIZE
Repartition of the sequences by size (excluding fragments)
From To Number From To Number
1- 50 9770 1001-1100 4041
51- 100 43035 1101-1200 2845
101- 150 59463 1201-1300 2172
151- 200 59205 1301-1400 2041
201- 250 58084 1401-1500 1646
251- 300 51925 1501-1600 811
301- 350 52346 1601-1700 624
351- 400 45416 1701-1800 573
401- 450 37336 1801-1900 489
451- 500 30192 1901-2000 386
501- 550 21935 2001-2100 259
551- 600 15561 2101-2200 364
601- 650 12967 2201-2300 331
651- 700 9308 2301-2400 225
701- 750 7742 2401-2500 180
751- 800 5619 >2500 1373
801- 850 4843
851- 900 5247
901- 950 4076
951-1000 2972
The average sequence length in UniProtKB/Swiss-Prot is 360 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: 2929
4.1 Table of the frequency of journal citations
Journals cited 1x: 946
2x: 401
3x: 180
4x: 140
5x: 120
6x: 84
7x: 71
8x: 68
9x: 39
10x: 35
11- 20x: 235
21- 50x: 243
51-100x: 126
>100x: 241
4.2 List of the most cited journals in UniProtKB/Swiss-Prot
Nb Citations Journal name
-- --------- -------------------------------------------------------------
1 25745 Journal of Biological Chemistry
2 11975 Proceedings of the National Academy of Sciences of the U.S.A.
3 6876 Journal of Bacteriology
4 5799 Biochemical and Biophysical Research Communications
5 5556 Biochemistry
6 5123 Nucleic Acids Research
7 4943 FEBS Letters
8 4850 Gene
9 4783 The EMBO Journal
10 4765 Nature
11 4450 Molecular and Cellular Biology
12 4388 Journal of Molecular Biology
13 3820 Biochimica et Biophysica Acta
14 3678 Cell
15 3446 European Journal of Biochemistry
16 3387 Journal of Virology
17 3153 Science
18 2995 Biochemical Journal
19 2693 Plant Physiology
20 2679 Molecular Microbiology
21 2539 Genomics
22 2296 The American Journal of Human Genetics
23 2258 Journal of Cell Biology
24 2246 PLoS ONE
25 2095 The Plant Cell
26 1958 The Plant Journal
27 1901 Human Molecular Genetics
28 1894 Plant Molecular Biology
29 1885 Genes and Development
30 1836 Virology
31 1802 Nature Genetics
32 1734 Molecular Biology of the Cell
33 1724 Development
34 1633 Molecular Cell
35 1594 Human Mutation
36 1561 Journal of Immunology
37 1549 Oncogene
38 1411 Structure
39 1406 Molecular and General Genetics
40 1374 Journal of Biochemistry
41 1348 Genetics
42 1307 Journal of Cell Science
43 1199 Blood
44 1181 Infection and Immunity
45 1159 Journal of General Virology
46 1112 Microbiology
47 1098 Current Biology
48 1095 Developmental Biology
49 1092 Archives of Biochemistry and Biophysics
50 956 Journal of Neuroscience
51 955 Applied and Environmental Microbiology
52 941 Acta Crystallographica, Section D
53 908 Cancer Research
54 861 FEMS Microbiology Letters
55 841 Yeast
56 823 Toxicon
57 807 Protein Science
58 787 Journal of Clinical Investigation
59 783 Neuron
60 776 PLoS Genetics
61 735 American Journal of Physiology
62 731 Plant and Cell Physiology
63 715 Human Genetics
64 702 Nature Communications
65 700 The Journal of Experimental Medicine
66 658 Proteins
67 655 Mechanisms of Development
68 649 Journal of Medical Genetics
69 647 Nature Structural Biology
70 603 Nature Cell Biology
71 593 Scientific Reports
72 588 Nature Structural and Molecular Biology
73 584 The FEBS Journal
74 579 Current Genetics
75 572 Bioscience, Biotechnology, and Biochemistry
76 552 Journal of Neurochemistry
77 545 Developmental Cell
78 544 Molecular Endocrinology
79 533 The Journal of Clinical Endocrinology and Metabolism
80 515 Endocrinology
81 511 Antimicrobial Agents and Chemotherapy
82 490 Mammalian Genome
83 473 Experimental Cell Research
84 471 PLoS Pathogens
85 469 Molecular and Biochemical Parasitology
86 450 Eukaryotic Cell
87 441 Peptides
88 440 Planta
89 438 Journal of the American Chemical Society
90 437 RNA
91 430 Immunogenetics
92 422 Journal of Experimental Botany
93 406 Journal of Molecular Evolution
94 406 Molecular Biology and Evolution
95 400 Molecular Pharmacology
96 394 EMBO Reports
97 394 The FASEB Journal
98 391 Acta Crystallographica, Section F
99 390 DNA and Cell Biology
100 388 American Journal of Medical Genetics. Part A
101 380 European Journal of Human Genetics
102 378 Journal of Investigative Dermatology
103 377 Molecular Plant-Microbe Interactions
104 376 DNA Sequence
105 375 Neurology
106 373 Immunity
107 360 Comparative Biochemistry and Physiology
108 358 Biology of Reproduction
109 348 Biochimie
110 341 Brain Research. Molecular Brain Research
111 338 Virus Research
112 337 Genes to Cells
113 332 Clinical Genetics
114 324 Developmental Dynamics
115 323 The New England Journal of Medicine
116 320 Journal of Lipid Research
117 307 Annals of Neurology
118 301 Genome Research
119 299 Nature Immunology
120 299 Biological Chemistry Hoppe-Seyler
121 299 BMC Genomics
122 298 European Journal of Immunology
123 297 Cell Reports
124 287 Investigative Ophthalmology and Visual Science
125 285 Applied Microbiology and Biotechnology
126 282 Journal of Medicinal Chemistry
127 281 Cytogenetics and Cell Genetics
128 280 PLoS Biology
129 273 Journal of General Microbiology
130 271 Journal of Human Genetics
131 262 Glycobiology
132 256 Archives of Microbiology
133 247
134 247 Traffic
135 244 Molecular Immunology
136 239 Journal of Cellular Biochemistry
137 239 Molecular Genetics and Metabolism
138 233 DNA Research
139 231 Phytochemistry
140 229 Protein Expression and Purification
141 229 Cell Cycle
142 226 Nature Medicine
143 225 Diabetes
144 223 Circulation Research
145 221 Archives of Virology
146 218 Hoppe-Seyler's Zeitschrift fur Physiologische Chemie
147 216 Fungal Genetics and Biology
148 211 Nature Chemical Biology
149 209 Molecular and Cellular Endocrinology
150 207 Brain
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) 1257251 2.23
Journal 1080697 462405 1.91 1
Submitted to EMBL/GenBank/DDBJ 165356 149694 0.29 2
Submitted to other databases 7595 6987 0.01 3
Book citation 1855 1832 <0.01 4
Plant Gene Register 612 599 <0.01 5
Unpublished observations 479 475 <0.01 6
Thesis 439 436 <0.01 7
Patent 212 205 <0.01 8
Worm Breeder's Gazette 6 6 <0.01 9
Total number of distinct authors cited in UniProtKB/Swiss-Prot: 433747
Total Number of Average
Line type / subtype number entries per entry Rank
------------------------------------ -------- --------- --------- ----
Comments (CC) 2632374 4.66
ACTIVITY REGULATION 16255 16202 0.03 17
ALLERGEN 924 924 <0.01 26
ALTERNATIVE PRODUCTS 25552 25552 0.05 13
BIOPHYSICOCHEMICAL PROPERTIES 9603 9592 0.02 20
BIOTECHNOLOGY 1411 1387 <0.01 24
CATALYTIC ACTIVITY 312021 244255 0.55 4
CAUTION 13558 13275 0.02 18
COFACTOR 128848 117186 0.23 7
DEVELOPMENTAL STAGE 13104 13067 0.02 19
DISEASE 7539 5069 0.01 21
DISRUPTION PHENOTYPE 17109 17098 0.03 16
DOMAIN 52661 44994 0.09 9
FUNCTION 476515 454075 0.84 2
INDUCTION 22848 22796 0.04 15
INTERACTION 23546 23546 0.04 14
MASS SPECTROMETRY 7095 5455 0.01 22
MISCELLANEOUS 44490 39087 0.08 12
PATHWAY 141304 127896 0.25 6
PHARMACEUTICAL 159 151 <0.01 29
POLYMORPHISM 1309 1254 <0.01 25
PTM 60250 43594 0.11 8
RNA EDITING 628 628 <0.01 28
SEQUENCE CAUTION 44656 44585 0.08 11
SIMILARITY 513288 509082 0.91 1
SUBCELLULAR LOCATION 354657 346747 0.63 3
SUBUNIT 287244 283161 0.51 5
TISSUE SPECIFICITY 48281 48088 0.09 10
TOXIC DOSE 798 644 <0.01 27
WEB RESOURCE 6721 5560 0.01 23
Total number of comment topics: 29
Total Number of Average
Line type / subtype number entries per entry Rank
------------------------------------ -------- --------- --------- ----
Features (FT) 4694983 8.32
ACT_SITE 168383 101744 0.30 10
BINDING 419719 111423 0.74 2
CA_BIND 4215 1750 0.01 36
CARBOHYD 119931 30701 0.21 15
CHAIN 572872 557310 1.01 1
COILED 22180 15353 0.04 27
COMPBIAS 59257 31888 0.10 21
CONFLICT 137337 47948 0.24 13
CROSSLNK 24247 8710 0.04 26
DISULFID 129519 34643 0.23 14
DNA_BIND 11953 10705 0.02 33
DOMAIN 207502 127398 0.37 9
HELIX 285606 25773 0.51 6
INIT_MET 17440 17392 0.03 28
INTRAMEM 2871 1316 0.01 37
LIPID 13409 8648 0.02 30
METAL 407121 98108 0.72 3
MOD_RES 257112 72991 0.46 7
MOTIF 45276 29567 0.08 23
MUTAGEN 81088 17379 0.14 18
NON_CONS 2511 815 <0.01 38
NON_STD 358 283 <0.01 39
NON_TER 12566 9642 0.02 31
NP_BIND 161012 86977 0.29 11
PEPTIDE 12039 8257 0.02 32
PROPEP 14727 12563 0.03 29
REGION 209578 97702 0.37 8
REPEAT 107350 14959 0.19 16
SIGNAL 43142 43141 0.08 24
SITE 61967 33371 0.11 20
STRAND 295369 24313 0.52 5
TOPO_DOM 145661 29645 0.26 12
TRANSIT 9290 9171 0.02 34
TRANSMEM 376101 78707 0.67 4
TURN 68964 20999 0.12 19
UNSURE 5580 843 0.01 35
VAR_SEQ 52509 22319 0.09 22
VARIANT 99019 17217 0.18 17
ZN_FING 30202 12910 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) 18229120 32.28
ABCD 2717 2717 <0.01 118 Protocols and materials databases
Allergome 2011 1296 <0.01 125 Protein family/group databases
Antibodypedia 32118 32007 0.06 56 Protocols and materials databases
ArachnoServer 1163 1154 <0.01 135 Organism-specific databases
Araport 16063 15967 0.03 85 Organism-specific databases
Bgee 57361 57359 0.10 43 Gene expression databases
BindingDB 5793 5793 0.01 103 Chemistry databases
BioCyc 202392 198340 0.36 24 Enzyme and pathway databases
BioGRID 59165 57335 0.10 42 Protein-protein interaction databases
BioGRID-ORCS 39034 38499 0.07 54 Miscellaneous databases
BioMuta 20318 20300 0.04 71 Genetic variation databases
BMRB 6908 6908 0.01 99 3D structure databases
BRENDA 13029 12244 0.02 88 Enzyme and pathway databases
CarbonylDB 1157 1157 <0.01 136 PTM databases
CAZy 9554 8610 0.02 92 Protein family/group databases
CCDS 48746 34298 0.09 48 Sequence databases
CDD 195592 175197 0.35 25 Family and domain databases
CGD 2001 1984 <0.01 126 Organism-specific databases
ChEMBL 7831 7667 0.01 96 Chemistry databases
ChiTaRS 29659 29622 0.05 60 Miscellaneous databases
CLAE 357 354 <0.01 151 Protein family/group databases
CollecTF 135 135 <0.01 159 Gene expression databases
ComplexPortal 11502 6454 0.02 89 Protein-protein interaction databases
COMPLUYEAST-2DPAGE 97 97 <0.01 161 2D gel databases
ConoServer 968 880 <0.01 139 Organism-specific databases
CORUM 5809 5809 0.01 102 Protein-protein interaction databases
CPTAC 2525 1632 <0.01 121 Proteomic databases
CPTC 302 302 <0.01 153 Protocols and materials databases
CTD 75416 74515 0.13 40 Organism-specific databases
DEPOD 254 254 <0.01 157 PTM databases
dictyBase 4215 4101 0.01 112 Organism-specific databases
DIP 17459 17419 0.03 80 Protein-protein interaction databases
DisGeNET 17034 16809 0.03 81 Organism-specific databases
DisProt 1538 1526 <0.01 128 Family and domain databases
DMDM 16193 16191 0.03 84 Genetic variation databases
DNASU 19075 19008 0.03 74 Protocols and materials databases
DOSAC-COBS-2DPAGE 145 145 <0.01 158 2D gel databases
DrugBank 29408 4704 0.05 62 Chemistry databases
DrugCentral 2564 2564 <0.01 120 Chemistry databases
EchoBASE 4158 4158 0.01 113 Organism-specific databases
eggNOG 336976 331113 0.60 14 Phylogenomic databases
ELM 1812 1812 <0.01 127 Protein-protein interaction databases
EMBL 991285 552391 1.76 3 Sequence databases
Ensembl 99193 51736 0.18 35 Genome annotation databases
EnsemblBacteria 309126 297707 0.55 17 Genome annotation databases
EnsemblFungi 30110 28492 0.05 59 Genome annotation databases
EnsemblMetazoa 18185 10517 0.03 78 Genome annotation databases
EnsemblPlants 30383 21519 0.05 57 Genome annotation databases
EnsemblProtists 5047 4868 0.01 106 Genome annotation databases
EPD 21199 21199 0.04 67 Proteomic databases
ESTHER 2586 2585 <0.01 119 Protein family/group databases
euHCVdb 55 44 <0.01 163 Organism-specific databases
EvolutionaryTrace 16674 16674 0.03 83 Miscellaneous databases
ExpressionAtlas 48488 48488 0.09 49 Gene expression databases
FlyBase 4930 4805 0.01 107 Organism-specific databases
Gene3D 415567 322568 0.74 13 Family and domain databases
GeneCards 20359 20194 0.04 68 Organism-specific databases
GeneDB 618 562 <0.01 145 Genome annotation databases
GeneID 308959 285760 0.55 18 Genome annotation databases
GeneReviews 1492 1489 <0.01 129 Organism-specific databases
GeneTree 60020 59974 0.11 41 Phylogenomic databases
Genevisible 55256 55256 0.10 45 Gene expression databases
GeneWiki 10350 10267 0.02 91 Miscellaneous databases
GenomeRNAi 22182 22181 0.04 65 Miscellaneous databases
GlyConnect 2328 2199 <0.01 122 PTM databases
GlyGen 11178 11178 0.02 90 PTM databases
GO 3089906 540272 5.47 1 Ontologies
Gramene 30383 21519 0.05 58 Genome annotation databases
GuidetoPHARMACOLOGY 2052 2052 <0.01 124 Chemistry databases
HAMAP 330566 327646 0.59 15 Family and domain databases
HGNC 20338 20205 0.04 69 Organism-specific databases
HOGENOM 424185 424185 0.75 11 Phylogenomic databases
HPA 18983 18847 0.03 75 Organism-specific databases
IDEAL 986 986 <0.01 138 Family and domain databases
IMGT_GENE-DB 267 267 <0.01 156 Protein family/group databases
InParanoid 140328 140328 0.25 27 Phylogenomic databases
IntAct 56159 56159 0.10 44 Protein-protein interaction databases
InterPro 2330805 545716 4.13 2 Family and domain databases
iPTMnet 52683 52683 0.09 46 PTM databases
jPOST 26400 26400 0.05 63 Proteomic databases
KEGG 502527 476937 0.89 8 Genome annotation databases
LegioList 765 763 <0.01 142 Organism-specific databases
Leproma 672 669 <0.01 143 Organism-specific databases
MaizeGDB 521 517 <0.01 146 Organism-specific databases
MalaCards 4823 4819 0.01 109 Organism-specific databases
MassIVE 17468 17468 0.03 79 Proteomic databases
MaxQB 29618 29618 0.05 61 Proteomic databases
MEROPS 13678 13678 0.02 87 Protein family/group databases
MetOSite 3106 3106 0.01 117 PTM databases
MGI 16984 16944 0.03 82 Organism-specific databases
MIM 21882 15418 0.04 66 Organism-specific databases
MINT 22800 22800 0.04 64 Protein-protein interaction databases
MoonDB 348 348 <0.01 152 Protein family/group databases
MoonProt 281 281 <0.01 155 Protein family/group databases
neXtProt 20336 20336 0.04 70 Organism-specific databases
NIAGADS 68 68 <0.01 162 Organism-specific databases
OGP 373 373 <0.01 150 2D gel databases
OMA 422434 422434 0.75 12 Phylogenomic databases
OpenTargets 18359 18209 0.03 76 Organism-specific databases
Orphanet 7730 4117 0.01 98 Organism-specific databases
OrthoDB 245908 245908 0.44 21 Phylogenomic databases
PANTHER 284237 271783 0.50 20 Family and domain databases
PathwayCommons 19491 19491 0.03 73 Enzyme and pathway databases
PATRIC 92502 92502 0.16 38 Genome annotation databases
PaxDb 125615 125615 0.22 32 Proteomic databases
PCDDB 129 129 <0.01 160 3D structure databases
PDB 214448 30336 0.38 22 3D structure databases
PDBsum 214448 30336 0.38 23 3D structure databases
PeptideAtlas 33449 33449 0.06 55 Proteomic databases
PeroxiBase 783 761 <0.01 141 Protein family/group databases
Pfam 785569 523880 1.39 4 Family and domain databases
PharmGKB 18313 18294 0.03 77 Organism-specific databases
Pharos 20095 20095 0.04 72 Miscellaneous databases
PHI-base 1460 1213 <0.01 130 Miscellaneous databases
PhosphoSitePlus 39082 39082 0.07 53 PTM databases
PhylomeDB 97034 97034 0.17 37 Phylogenomic databases
PIR 124491 114218 0.22 33 Sequence databases
PIRSF 107782 106687 0.19 34 Family and domain databases
PlantReactome 1080 741 <0.01 137 Enzyme and pathway databases
PomBase 5129 5125 0.01 105 Organism-specific databases
PRIDE 136407 136407 0.24 29 Proteomic databases
PRINTS 131145 116289 0.23 30 Family and domain databases
PRO 97291 97291 0.17 36 Miscellaneous databases
ProMEX 467 467 <0.01 148 Proteomic databases
PROSITE 481844 305842 0.85 9 Family and domain databases
Proteomes 502975 468839 0.89 7 Miscellaneous databases
ProteomicsDB 82272 52828 0.15 39 Proteomic databases
PseudoCAP 1406 1397 <0.01 132 Organism-specific databases
Reactome 125725 35849 0.22 31 Enzyme and pathway databases
REBASE 623 385 <0.01 144 Protein family/group databases
RefSeq 616365 470850 1.09 5 Sequence databases
REPRODUCTION-2DPAGE 1259 1038 <0.01 133 2D gel databases
RGD 8050 8047 0.01 95 Organism-specific databases
RNAct 43023 43023 0.08 51 Miscellaneous databases
SABIO-RK 4863 4863 0.01 108 Enzyme and pathway databases
SASBDB 461 461 <0.01 149 3D structure databases
SFLD 9469 7350 0.02 93 Family and domain databases
SGD 6740 6735 0.01 100 Organism-specific databases
SignaLink 3110 3110 0.01 116 Enzyme and pathway databases
SIGNOR 5197 5197 0.01 104 Enzyme and pathway databases
SMART 194146 143157 0.34 26 Family and domain databases
SMR 457015 457015 0.81 10 3D structure databases
STRING 329734 329734 0.58 16 Protein-protein interaction databases
SUPFAM 514895 389306 0.91 6 Family and domain databases
SWISS-2DPAGE 1177 1177 <0.01 134 2D gel databases
SwissLipids 1456 1371 <0.01 131 Chemistry databases
SwissPalm 8646 8646 0.02 94 PTM databases
TAIR 14840 14784 0.03 86 Organism-specific databases
TCDB 7757 7693 0.01 97 Protein family/group databases
TIGRFAMs 293003 272951 0.52 19 Family and domain databases
TopDownProteomics 3237 2960 0.01 114 Proteomic databases
TreeFam 45773 45766 0.08 50 Phylogenomic databases
TubercuList 2274 2238 <0.01 123 Organism-specific databases
UCD-2DPAGE 496 496 <0.01 147 2D gel databases
UCSC 50410 46011 0.09 47 Genome annotation databases
UniLectin 286 286 <0.01 154 Protein family/group databases
UniPathway 138333 125113 0.24 28 Enzyme and pathway databases
VEuPathDB 41409 40035 0.07 52 Organism-specific databases
VGNC 4362 4349 0.01 111 Organism-specific databases
WBParaSite 48 43 <0.01 164 Genome annotation databases
World-2DPAGE 932 921 <0.01 140 2D gel databases
WormBase 6506 4827 0.01 101 Organism-specific databases
Xenbase 4541 4540 0.01 110 Organism-specific databases
ZFIN 3169 3164 0.01 115 Organism-specific databases
Total number of cross-referenced databases: 164
6. AMINO ACID COMPOSITION
6.1 Composition in percent for the complete database
Ala (A) 8.25 Gln (Q) 3.93 Leu (L) 9.65 Ser (S) 6.63
Arg (R) 5.53 Glu (E) 6.72 Lys (K) 5.80 Thr (T) 5.35
Asn (N) 4.06 Gly (G) 7.07 Met (M) 2.41 Trp (W) 1.10
Asp (D) 5.46 His (H) 2.27 Phe (F) 3.86 Tyr (Y) 2.92
Cys (C) 1.38 Ile (I) 5.91 Pro (P) 4.73 Val (V) 6.86
Asx (B) 0.000 Glx (Z) 0.000 Xaa (X) 0.00
Legend: gray = aliphatic, red = acidic, green = small hydroxy,
blue = basic, black = aromatic, white = amide, yellow = sulfur
6.2 Classification of the amino acids by their frequency
Leu, Ala, Gly, Val, Glu, Ser, Ile, Lys, Arg, Asp, Thr, Pro, Asn, Gln,
Phe, Tyr, Met, His, Cys, Trp
7. MISCELLANEOUS STATISTICS
4464 entries are encoded on a mitochondrion, and 3946 are encoded on a plasmid.
12189 entries are encoded on a plastid,
of which 21 are encoded on apicoplasts,
11624 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: 80210