UniProtKB/Swiss-Prot protein knowledgebase release 2019_11 statistics
1. INTRODUCTION
Release 2019_11 of 11-Dec-19 of UniProtKB/Swiss-Prot contains 561568 sequence entries,
comprising 201997950 amino acids abstracted from 269719 references.
224 sequences have been added since release 2019_10, the sequence data of
22 existing entries has been updated and the annotations of
561344 entries have been revised.
Number of fragments: 9202
Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 40216
Protein existence (PE): entries %
1: Evidence at protein level 102111 18.2%
2: Evidence at transcript level 57277 10.2%
3: Inferred from homology 386945 68.9%
4: Predicted 13398 2.4%
5: Uncertain 1837 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: 13856
The first twenty species represent 121123 sequences: 21.6 % of the total
number of entries.
2.1 Table of the frequency of occurrence of species
Species represented 1x: 5704
2x: 1993
3x: 1078
4x: 704
5x: 516
6x: 411
7x: 307
8x: 249
9x: 230
10x: 144
11- 20x: 780
21- 50x: 465
51-100x: 222
>100x: 1053
2.2 Table of the most represented species
------ --------- --------------------------------------------
Number Frequency Species
------ --------- --------------------------------------------
1 20367 Homo sapiens (Human)
2 17027 Mus musculus (Mouse)
3 15922 Arabidopsis thaliana (Mouse-ear cress)
4 8085 Rattus norvegicus (Rat)
5 6721 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
6 6008 Bos taurus (Bovine)
7 5140 Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
8 4518 Escherichia coli (strain K12)
9 4188 Bacillus subtilis (strain 168)
10 4149 Dictyostelium discoideum (Slime mold)
11 4105 Caenorhabditis elegans
12 4070 Oryza sativa subsp. japonica (Rice)
13 3599 Drosophila melanogaster (Fruit fly)
14 3448 Xenopus laevis (African clawed frog)
15 3138 Danio rerio (Zebrafish) (Brachydanio rerio)
16 2291 Gallus gallus (Chicken)
17 2218 Pongo abelii (Sumatran orangutan) (Pongo pygmaeus abelii)
18 2191 Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
19 2040 Escherichia coli O157:H7
20 1898 Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)
21 1799 Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
22 1787 Methanocaldococcus jannaschii
23 1707 Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
24 1706 Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
25 1694 Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)
26 1685 Shigella flexneri
27 1432 Sus scrofa (Pig)
28 1347 Salmonella typhi
29 1339 Pseudomonas aeruginosa
30 1244 Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97)
31 1175 Macaca fascicularis (Crab-eating macaque) (Cynomolgus monkey)
32 1066 Synechocystis sp. (strain PCC 6803 / Kazusa)
33 1035 Archaeoglobus fulgidus
34 1025 Yersinia pestis
35 1011 Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)
36 977 Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
37 941 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)
41 927 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 Escherichia coli O6:K15:H31 (strain 536 / UPEC)
47 894 Oryctolagus cuniculus (Rabbit)
48 889 Staphylococcus aureus (strain MSSA476)
49 888 Staphylococcus aureus (strain MRSA252)
50 883 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
54 863 Yersinia pseudotuberculosis serotype I (strain IP32953)
55 856 Neurospora crassa
56 844 Oryza sativa subsp. indica (Rice)
57 841 Escherichia coli O9:H4 (strain HS)
58 834 Escherichia coli O139:H28 (strain E24377A / ETEC)
59 831 Zea mays (Maize)
60 829 Shigella boydii serotype 4 (strain Sb227)
61 827 Canis lupus familiaris (Dog) (Canis familiaris)
62 825 Escherichia coli (strain UTI89 / UPEC)
63 822 Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100)
64 822 Shigella dysenteriae serotype 1 (strain Sd197)
65 819 Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks)
66 803 Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672)
67 802 Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)
68 797 Staphylococcus aureus (strain NCTC 8325)
69 793 Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
70 791 Escherichia coli (strain SMS-3-5 / SECEC)
71 786 Aquifex aeolicus (strain VF5)
72 771 Escherichia coli (strain K12 / DH10B)
73 770 Pasteurella multocida (strain Pm70)
74 770 Escherichia coli O127:H6 (strain E2348/69 / EPEC)
75 765 Escherichia coli (strain K12 / MC4100 / BW2952)
76 765 Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC)
77 762 Escherichia coli (strain 55989 / EAEC)
78 761 Escherichia coli O8 (strain IAI1)
79 760 Staphylococcus epidermidis (strain ATCC 35984 / RP62A)
80 760 Shigella flexneri serotype 5b (strain 8401)
81 759 Staphylococcus epidermidis (strain ATCC 12228)
82 756 Escherichia coli (strain SE11)
83 756 Escherichia coli O45:K1 (strain S88 / ExPEC)
84 753 Escherichia coli O7:K1 (strain IAI39 / ExPEC)
85 751 Bacillus anthracis
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)
92 724 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 Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)
97 715 Enterobacter sp. (strain 638)
98 715 Yersinia pestis bv. Antiqua (strain Nepal516)
99 714 Salmonella paratyphi A (strain AKU_12601)
100 714 Escherichia coli O1:K1 / APEC
101 713 Salmonella newport (strain SL254)
102 713 Salmonella agona (strain SL483)
103 713 Yersinia pseudotuberculosis serotype O:1b (strain IP 31758)
104 712 Salmonella schwarzengrund (strain CVM19633)
105 711 Yersinia pestis bv. Antiqua (strain Antiqua)
106 710 Salmonella heidelberg (strain SL476)
107 702 Salmonella dublin (strain CT_02021853)
108 698 Shigella boydii serotype 18 (strain CDC 3083-94 / BS512)
109 698 Klebsiella pneumoniae (strain 342)
110 695 Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73)
111 693 Pan troglodytes (Chimpanzee)
112 692 Nostoc sp. (strain PCC 7120 / SAG 25.82 / UTEX 2576)
113 686 Mycoplasma pneumoniae (strain ATCC 29342 / M129)
114 684 Salmonella gallinarum (strain 287/91 / NCTC 13346)
115 680 Pseudomonas syringae pv. tomato (strain ATCC BAA-871 / DC3000)
116 678 Citrobacter koseri (strain ATCC BAA-895 / CDC 4225-83 / SGSC4696)
117 677 Staphylococcus aureus (strain USA300)
118 676 Escherichia coli
119 672 Serratia proteamaculans (strain 568)
120 669 Mycobacterium leprae (strain TN)
121 668 Bacillus cereus
122 667 Yersinia pestis (strain Pestoides F)
123 664 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
127 650 Shewanella oneidensis (strain MR-1)
128 650 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)
131 640 Yersinia pseudotuberculosis serotype O:3 (strain YPIII)
132 634 Yersinia pseudotuberculosis serotype IB (strain PB1/+)
133 622 Treponema pallidum (strain Nichols)
134 622 Cronobacter sakazakii (strain ATCC BAA-894) (Enterobacter sakazakii)
135 620 Methanothermobacter thermautotrophicus
136 615 Xanthomonas campestris pv. campestris
137 615 Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)
138 614 Staphylococcus haemolyticus (strain JCSC1435)
139 611 Mesorhizobium japonicum (Mesorhizobium loti
140 608 Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
141 603 Ralstonia solanacearum (strain GMI1000) (Pseudomonas solanacearum)
142 603 Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)
143 602 Photobacterium profundum (strain SS9)
144 602 Staphylococcus saprophyticus subsp. saprophyticus
145 601 Salmonella paratyphi C (strain RKS4594)
146 600 Yersinia pestis bv. Antiqua (strain Angola)
147 598 Pseudomonas aeruginosa (strain UCBPP-PA14)
148 595 Bacillus cereus (strain ATCC 10987 / NRS 248)
149 591 Pectobacterium carotovorum subsp. carotovorum (strain PC1)
150 584 Rickettsia prowazekii (strain Madrid E)
151 582 Neisseria meningitidis serogroup B (strain MC58)
152 580 Caenorhabditis briggsae
153 579 Brucella suis biovar 1 (strain 1330)
154 574 Brucella melitensis biotype 1 (strain 16M / ATCC 23456 / NCTC 10094)
155 573 Aliivibrio fischeri (strain ATCC 700601 / ES114) (Vibrio fischeri)
156 572 Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS)
157 572 Caulobacter vibrioides (strain ATCC 19089 / CB15) (Caulobacter crescentus)
158 569 Bacillus thuringiensis subsp. konkukian (strain 97-27)
159 568 Helicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99)
160 567 Pseudomonas syringae pv. syringae (strain B728a)
161 564 Bacillus licheniformis
162 562 Bacillus cereus (strain ZK / E33L)
163 562 Buchnera aphidicola subsp. Schizaphis graminum (strain Sg)
164 560 Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)
165 559 Clostridium acetobutylicum
166 557 Xanthomonas axonopodis pv. citri (strain 306)
167 555 Pseudomonas fluorescens (strain Pf0-1)
168 555 Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
169 554 Neisseria meningitidis serogroup A / serotype 4A (strain Z2491)
170 553 Oceanobacillus iheyensis
171 551 Pseudomonas fluorescens (strain ATCC BAA-477 / NRRL B-23932 / Pf-5)
172 547 Pseudomonas savastanoi pv. phaseolicola (Pseudomonas syringae pv. phaseolicola
173 540 Lactococcus lactis subsp. lactis (strain IL1403) (Streptococcus lactis)
174 531 Erwinia tasmaniensis (strain DSM 17950 / CIP 109463 / Et1/99)
175 530 Corynebacterium glutamicum
176 529 Listeria monocytogenes serotype 4b (strain F2365)
177 529 Sodalis glossinidius (strain morsitans)
178 528 Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50)
179 524 Staphylococcus aureus (strain Newman)
180 522 Xylella fastidiosa (strain 9a5c)
181 520 Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)
182 517 Chromobacterium violaceum
183 516 Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251)
184 515 Aspergillus oryzae (strain ATCC 42149 / RIB 40) (Yellow koji mold)
185 515 Deinococcus radiodurans
186 515 Xylella fastidiosa (strain Temecula1 / ATCC 700964)
187 513 Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 / JCM 12185 / C2A)
188 512 Pseudomonas aeruginosa (strain PA7)
189 511 Streptomyces avermitilis
190 511 Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)
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)
196 501 Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
197 499 Brucella abortus biovar 1 (strain 9-941)
198 498 Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1)
199 497 Haemophilus influenzae (strain 86-028NP)
200 496 Rickettsia conorii (strain ATCC VR-613 / Malish 7)
201 496 Bacillus clausii (strain KSM-K16)
202 496 Burkholderia pseudomallei (strain K96243)
203 494 Proteus mirabilis (strain HI4320)
204 493 Xanthomonas campestris pv. campestris (strain 8004)
205 492 Bacillus velezensis (strain DSM 23117 / BGSC 10A6 / FZB42)
206 491 Vibrio campbellii (strain ATCC BAA-1116 / BB120)
207 491 Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1)
208 491 Pyrococcus horikoshii
209 488 Methanosarcina mazei
210 487 Shewanella sp. (strain MR-7)
211 486 Mannheimia succiniciproducens (strain MBEL55E)
212 486 Brucella abortus (strain 2308)
213 485 Thermosynechococcus elongatus (strain BP-1)
214 484 Shewanella sp. (strain MR-4)
215 484 Staphylococcus aureus (strain Mu3 / ATCC 700698)
216 484 Pseudomonas aeruginosa (strain LESB58)
217 483 Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195)
218 482 Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
219 482 Streptococcus pneumoniae (strain ATCC BAA-255 / R6)
220 480 Synechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)
221 480 Solanum lycopersicum (Tomato) (Lycopersicon esculentum)
222 480 Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)
223 478 Pseudomonas putida (strain ATCC 700007 / DSM 6899 / BCRC 17059 / F1)
224 477 Nicotiana tabacum (Common tobacco)
225 477 Pyrococcus abyssi (strain GE5 / Orsay)
226 475 Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337)
227 474 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 Pseudomonas putida (strain GB-1)
231 468 Clostridium perfringens (strain 13 / Type A)
232 467 Campylobacter jejuni subsp. jejuni serotype O:2
233 467 Shewanella frigidimarina (strain NCIMB 400)
234 466 Xanthomonas campestris pv. vesicatoria (strain 85-10)
235 466 Shewanella sp. (strain ANA-3)
236 466 Enterococcus faecalis (strain ATCC 700802 / V583)
237 466 Aeromonas hydrophila subsp. hydrophila
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
241 458 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 Shewanella baltica (strain OS185)
245 455 Staphylococcus aureus (strain JH1)
246 455 Xanthomonas oryzae pv. oryzae (strain MAFF 311018)
247 453 Streptococcus mutans serotype c (strain ATCC 700610 / UA159)
248 453 Pseudomonas putida (strain W619)
249 452 Aeromonas salmonicida (strain A449)
250 450 Mycolicibacterium paratuberculosis (strain ATCC BAA-968 / K-10)
2.3 Taxonomic distribution of the sequences
Kingdom sequences (% of the database)
Archaea 19581 ( 3%)
Bacteria 334357 ( 60%)
Eukaryota 190642 ( 34%)
Viruses 16988 ( 3%)
Within Eukaryota:
Category sequences (% of Eukaryota) (% of the complete database)
Human 20368 ( 11%) ( 4%)
Other Mammalia 46839 ( 25%) ( 8%)
Other Vertebrata 18434 ( 10%) ( 3%)
Viridiplantae 40216 ( 21%) ( 7%)
Fungi 34262 ( 18%) ( 6%)
Insecta 9354 ( 5%) ( 2%)
Nematoda 5015 ( 3%) ( 1%)
Other 16154 ( 8%) ( 3%)
3. SEQUENCE SIZE
Repartition of the sequences by size (excluding fragments)
From To Number From To Number
1- 50 9678 1001-1100 4021
51- 100 42770 1101-1200 2816
101- 150 59297 1201-1300 2153
151- 200 59067 1301-1400 2020
201- 250 57926 1401-1500 1629
251- 300 51664 1501-1600 801
301- 350 52036 1601-1700 620
351- 400 45135 1701-1800 566
401- 450 37136 1801-1900 481
451- 500 29983 1901-2000 382
501- 550 21689 2001-2100 253
551- 600 15449 2101-2200 347
601- 650 12884 2201-2300 323
651- 700 9252 2301-2400 218
701- 750 7686 2401-2500 167
751- 800 5561 >2500 1329
801- 850 4797
851- 900 5225
901- 950 4058
951-1000 2947
The average sequence length in UniProtKB/Swiss-Prot is 359 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: 2846
4.1 Table of the frequency of journal citations
Journals cited 1x: 911
2x: 400
3x: 171
4x: 130
5x: 115
6x: 91
7x: 77
8x: 61
9x: 40
10x: 33
11- 20x: 225
21- 50x: 233
51-100x: 124
>100x: 235
4.2 List of the most cited journals in UniProtKB/Swiss-Prot
Nb Citations Journal name
-- --------- -------------------------------------------------------------
1 25014 Journal of Biological Chemistry
2 11658 Proceedings of the National Academy of Sciences of the U.S.A.
3 6708 Journal of Bacteriology
4 5702 Biochemical and Biophysical Research Communications
5 5414 Biochemistry
6 5035 Nucleic Acids Research
7 4863 FEBS Letters
8 4824 Gene
9 4720 The EMBO Journal
10 4643 Nature
11 4385 Molecular and Cellular Biology
12 4314 Journal of Molecular Biology
13 3706 Biochimica et Biophysica Acta
14 3612 Cell
15 3414 European Journal of Biochemistry
16 3300 Journal of Virology
17 3072 Science
18 2894 Biochemical Journal
19 2612 Plant Physiology
20 2588 Molecular Microbiology
21 2537 Genomics
22 2219 Journal of Cell Biology
23 2206 The American Journal of Human Genetics
24 2040 The Plant Cell
25 2035 PLoS ONE
26 1889 The Plant Journal
27 1877 Plant Molecular Biology
28 1854 Human Molecular Genetics
29 1849 Genes and Development
30 1814 Virology
31 1774 Nature Genetics
32 1695 Molecular Biology of the Cell
33 1687 Development
34 1581 Human Mutation
35 1575 Molecular Cell
36 1543 Oncogene
37 1507 Journal of Immunology
38 1395 Molecular and General Genetics
39 1370 Structure
40 1352 Journal of Biochemistry
41 1328 Genetics
42 1284 Journal of Cell Science
43 1178 Blood
44 1151 Infection and Immunity
45 1150 Journal of General Virology
46 1082 Microbiology
47 1070 Current Biology
48 1062 Archives of Biochemistry and Biophysics
49 1062 Developmental Biology
50 932 Applied and Environmental Microbiology
51 929 Journal of Neuroscience
52 901 Acta Crystallographica, Section D
53 888 Cancer Research
54 846 FEMS Microbiology Letters
55 839 Yeast
56 793 Toxicon
57 788 Protein Science
58 770 Neuron
59 752 Journal of Clinical Investigation
60 704 Plant and Cell Physiology
61 703 Human Genetics
62 700 American Journal of Physiology
63 693 PLoS Genetics
64 665 The Journal of Experimental Medicine
65 649 Mechanisms of Development
66 646 Nature Structural Biology
67 637 Proteins
68 627 Journal of Medical Genetics
69 584 Nature Cell Biology
70 574 Current Genetics
71 556 Bioscience, Biotechnology, and Biochemistry
72 552 Nature Structural and Molecular Biology
73 542 Journal of Neurochemistry
74 539 Molecular Endocrinology
75 539 The FEBS Journal
76 537 Nature Communications
77 525 Developmental Cell
78 521 The Journal of Clinical Endocrinology and Metabolism
79 506 Endocrinology
80 488 Mammalian Genome
81 483 Antimicrobial Agents and Chemotherapy
82 464 Experimental Cell Research
83 450 Molecular and Biochemical Parasitology
84 445 Scientific Reports
85 434 Planta
86 433 Eukaryotic Cell
87 430 Immunogenetics
88 421 RNA
89 418 Peptides
90 416 PLoS Pathogens
91 407 Journal of Molecular Evolution
92 399 Molecular Biology and Evolution
93 399 Journal of the American Chemical Society
94 397 Journal of Experimental Botany
95 388 DNA and Cell Biology
96 383 Molecular Pharmacology
97 375 EMBO Reports
98 375 DNA Sequence
99 374 The FASEB Journal
100 371 Neurology
101 371 Acta Crystallographica, Section F
102 370 Journal of Investigative Dermatology
103 369 American Journal of Medical Genetics. Part A
104 366 Molecular Plant-Microbe Interactions
105 358 European Journal of Human Genetics
106 351 Biology of Reproduction
107 351 Comparative Biochemistry and Physiology
108 347 Immunity
109 340 Brain Research. Molecular Brain Research
110 328 Virus Research
111 327 Genes to Cells
112 324 Biochimie
113 321 The New England Journal of Medicine
114 318 Developmental Dynamics
115 314 Clinical Genetics
116 301 Annals of Neurology
117 299 Genome Research
118 297 Biological Chemistry Hoppe-Seyler
119 287 European Journal of Immunology
120 284 BMC Genomics
121 282 Cytogenetics and Cell Genetics
122 281 Nature Immunology
123 276 Investigative Ophthalmology and Visual Science
124 272 Journal of General Microbiology
125 268 Applied Microbiology and Biotechnology
126 267 Journal of Lipid Research
127 266 Journal of Human Genetics
128 262 PLoS Biology
129 261 Journal of Medicinal Chemistry
130 252 Cell Reports
131 248 Archives of Microbiology
132 241 Glycobiology
133 237 Molecular Immunology
134 235 Journal of Cellular Biochemistry
135 234 Traffic
136 232 DNA Research
137 227 Molecular Genetics and Metabolism
138 222 Cell Cycle
139 219 Diabetes
140 218 Hoppe-Seyler's Zeitschrift fur Physiologische Chemie
141 217 Archives of Virology
142 217 Circulation Research
143 213 Protein Expression and Purification
144 212 Phytochemistry
145 210 Nature Medicine
146 208 Molecular and Cellular Endocrinology
147 207 Fungal Genetics and Biology
148 197 Molecular Genetics and Genomics
149 192 Chemistry and Biology
150 192 Tissue Antigens
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) 1235631 2.20
Journal 1059599 459060 1.89 1
Submitted to EMBL/GenBank/DDBJ 165030 149457 0.29 2
Submitted to other databases 7460 6881 0.01 3
Book citation 1834 1811 <0.01 4
Plant Gene Register 612 599 <0.01 5
Unpublished observations 445 441 <0.01 6
Thesis 435 432 <0.01 7
Patent 210 204 <0.01 8
Worm Breeder's Gazette 6 6 <0.01 9
Total number of distinct authors cited in UniProtKB/Swiss-Prot: 419314
Total Number of Average
Line type / subtype number entries per entry Rank
------------------------------------ -------- --------- --------- ----
Comments (CC) 2576081 4.59
ACTIVITY REGULATION 15428 15426 0.03 17
ALLERGEN 875 875 <0.01 26
ALTERNATIVE PRODUCTS 25358 25358 0.05 13
BIOPHYSICOCHEMICAL PROPERTIES 8791 8790 0.02 20
BIOTECHNOLOGY 1119 1103 <0.01 25
CATALYTIC ACTIVITY 295063 240549 0.53 4
CAUTION 13259 12993 0.02 18
COFACTOR 126470 115099 0.23 7
DEVELOPMENTAL STAGE 12503 12502 0.02 19
DISEASE 7286 4897 0.01 21
DISRUPTION PHENOTYPE 15449 15446 0.03 16
DOMAIN 50537 43316 0.09 9
FUNCTION 470500 449369 0.84 2
INDUCTION 21926 21913 0.04 14
INTERACTION 19605 19605 0.03 15
MASS SPECTROMETRY 6876 5286 0.01 23
MISCELLANEOUS 43789 38485 0.08 12
PATHWAY 139436 126350 0.25 6
PHARMACEUTICAL 121 117 <0.01 29
POLYMORPHISM 1271 1217 <0.01 24
PTM 58308 42637 0.10 8
RNA EDITING 627 627 <0.01 28
SEQUENCE CAUTION 44381 44305 0.08 11
SIMILARITY 510381 506204 0.91 1
SUBCELLULAR LOCATION 351612 344031 0.63 3
SUBUNIT 280625 279682 0.50 5
TISSUE SPECIFICITY 46868 46867 0.08 10
TOXIC DOSE 675 616 <0.01 27
WEB RESOURCE 6942 5767 0.01 22
Total number of comment topics: 29
Total Number of Average
Line type / subtype number entries per entry Rank
------------------------------------ -------- --------- --------- ----
Features (FT) 4585387 8.17
ACT_SITE 165494 100194 0.29 10
BINDING 409570 108607 0.73 2
CA_BIND 4206 1743 0.01 36
CARBOHYD 117497 30181 0.21 15
CHAIN 569675 554420 1.01 1
COILED 22110 15304 0.04 27
COMPBIAS 59176 31836 0.11 21
CONFLICT 136589 47666 0.24 13
CROSSLNK 23812 8518 0.04 26
DISULFID 126911 34050 0.23 14
DNA_BIND 11890 10632 0.02 32
DOMAIN 200406 123083 0.36 9
HELIX 269919 24621 0.48 6
INIT_MET 17339 17291 0.03 28
INTRAMEM 2791 1275 <0.01 37
LIPID 13221 8525 0.02 30
METAL 396295 96813 0.71 3
MOD_RES 254507 72399 0.45 7
MOTIF 44288 28949 0.08 23
MUTAGEN 74931 16257 0.13 18
NON_CONS 2523 820 <0.01 38
NON_STD 357 282 <0.01 39
NON_TER 12516 9591 0.02 31
NP_BIND 158698 86135 0.28 11
PEPTIDE 11696 8061 0.02 33
PROPEP 14384 12272 0.03 29
REGION 202158 95034 0.36 8
REPEAT 106330 14854 0.19 16
SIGNAL 42533 42532 0.08 24
SITE 59753 32439 0.11 20
STRAND 280191 23206 0.50 5
TOPO_DOM 141328 28916 0.25 12
TRANSIT 9180 9064 0.02 34
TRANSMEM 372666 77811 0.66 4
TURN 65075 20010 0.12 19
UNSURE 5577 839 0.01 35
VAR_SEQ 52208 22132 0.09 22
VARIANT 97568 17120 0.17 17
ZN_FING 30019 12800 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) 18709189 33.32
ABCD 1609 1609 <0.01 122 Protocols and materials databases
Allergome 1936 1258 <0.01 120 Protein family/group databases
ArachnoServer 1163 1154 <0.01 129 Organism-specific databases
Araport 15942 15846 0.03 82 Organism-specific databases
Bgee 56775 56774 0.10 41 Gene expression databases
BindingDB 5193 5193 0.01 99 Chemistry
BioCyc 270162 244570 0.48 22 Enzyme and pathway databases
BioGrid 54588 52899 0.10 45 Protein-protein interaction databases
BioMuta 20316 20301 0.04 69 Polymorphism and mutation databases
BRENDA 12959 12177 0.02 85 Enzyme and pathway databases
CarbonylDB 1157 1157 <0.01 130 PTM databases
CAZy 9511 8572 0.02 88 Protein family/group databases
CCDS 48308 34253 0.09 49 Sequence databases
CDD 184396 167326 0.33 28 Family and domain databases
CGD 1999 1982 <0.01 119 Organism-specific databases
ChEMBL 7266 7145 0.01 94 Chemistry
ChiTaRS 29613 29576 0.05 56 Other
CollecTF 135 135 <0.01 152 Gene expression databases
ComplexPortal 9441 5083 0.02 89 Protein-protein interaction databases
COMPLUYEAST-2DPAGE 97 97 <0.01 153 2D gel databases
ConoServer 954 870 <0.01 131 Organism-specific databases
CORUM 5805 5805 0.01 98 Protein-protein interaction databases
CPTAC 2221 1423 <0.01 116 Proteomic databases
CTD 75211 74320 0.13 40 Organism-specific databases
DEPOD 239 239 <0.01 150 PTM databases
dictyBase 4214 4100 0.01 107 Organism-specific databases
DIP 17410 17378 0.03 78 Protein-protein interaction databases
DisGeNET 15648 15417 0.03 83 Organism-specific databases
DisProt 1377 1365 <0.01 125 Family and domain databases
DMDM 16197 16195 0.03 81 Polymorphism and mutation databases
DNASU 19023 18957 0.03 73 Protocols and materials databases
DOSAC-COBS-2DPAGE 145 145 <0.01 151 2D gel databases
DrugBank 27238 4518 0.05 62 Chemistry
DrugCentral 2531 2531 <0.01 114 Chemistry
EchoBASE 4159 4159 0.01 108 Organism-specific databases
eggNOG 666526 332529 1.19 5 Phylogenomic databases
ELM 1811 1811 <0.01 121 Protein-protein interaction databases
EMBL 985973 549507 1.76 3 Sequence databases
Ensembl 97178 51052 0.17 36 Genome annotation databases
EnsemblBacteria 356006 336822 0.63 16 Genome annotation databases
EnsemblFungi 29566 28009 0.05 58 Genome annotation databases
EnsemblMetazoa 17746 10362 0.03 76 Genome annotation databases
EnsemblPlants 28122 21053 0.05 60 Genome annotation databases
EnsemblProtists 5009 4830 0.01 102 Genome annotation databases
EPD 22046 22046 0.04 66 Proteomic databases
ESTHER 2539 2538 <0.01 113 Protein family/group databases
euHCVdb 55 44 <0.01 155 Organism-specific databases
EuPathDB 39041 38847 0.07 54 Organism-specific databases
EvolutionaryTrace 16631 16631 0.03 80 Other
ExpressionAtlas 49505 49505 0.09 48 Gene expression databases
FlyBase 4904 4778 0.01 103 Organism-specific databases
Gene3D 402991 314805 0.72 14 Family and domain databases
GeneCards 20345 20172 0.04 68 Organism-specific databases
GeneDB 582 526 <0.01 139 Genome annotation databases
GeneID 290949 281313 0.52 20 Genome annotation databases
GeneReviews 1479 1475 <0.01 123 Organism-specific databases
GeneTree 56092 56052 0.10 42 Phylogenomic databases
Genevisible 55235 55235 0.10 43 Gene expression databases
GeneWiki 10350 10267 0.02 87 Other
GenomeRNAi 22151 22151 0.04 65 Other
GlyConnect 2250 2109 <0.01 115 PTM databases
GO 3035358 536441 5.41 1 Ontologies
Gramene 28122 21053 0.05 59 Genome annotation databases
GuidetoPHARMACOLOGY 2013 2013 <0.01 118 Chemistry
HAMAP 330185 327265 0.59 17 Family and domain databases
HGNC 20312 20173 0.04 70 Organism-specific databases
HOGENOM 392321 392321 0.70 15 Phylogenomic databases
HPA 27767 16842 0.05 61 Organism-specific databases
IMGT_GENE-DB 266 266 <0.01 149 Protein family/group databases
InParanoid 139902 139902 0.25 29 Phylogenomic databases
IntAct 54793 54793 0.10 44 Protein-protein interaction databases
InterPro 2293226 542767 4.08 2 Family and domain databases
iPTMnet 52598 52598 0.09 46 PTM databases
jPOST 26775 26775 0.05 63 Proteomic databases
KEGG 504894 475950 0.90 7 Genome annotation databases
KO 408369 407921 0.73 13 Phylogenomic databases
LegioList 765 763 <0.01 135 Organism-specific databases
Leproma 672 669 <0.01 136 Organism-specific databases
MaizeGDB 520 516 <0.01 141 Organism-specific databases
MalaCards 4591 4587 0.01 104 Organism-specific databases
MassIVE 17476 17476 0.03 77 Proteomic databases
MaxQB 29587 29587 0.05 57 Proteomic databases
MEROPS 11459 11457 0.02 86 Protein family/group databases
MGI 16937 16897 0.03 79 Organism-specific databases
MIM 21397 15175 0.04 67 Organism-specific databases
MINT 22786 22786 0.04 64 Protein-protein interaction databases
MoonDB 348 348 <0.01 146 Protein family/group databases
MoonProt 280 280 <0.01 147 Protein family/group databases
mycoCLAP 355 352 <0.01 145 Protein family/group databases
neXtProt 20264 20264 0.04 71 Organism-specific databases
NIAGADS 68 68 <0.01 154 Organism-specific databases
OGP 373 373 <0.01 144 2D gel databases
OMA 411804 411804 0.73 12 Phylogenomic databases
OpenTargets 18425 18272 0.03 74 Organism-specific databases
Orphanet 7589 4034 0.01 93 Organism-specific databases
OrthoDB 257314 257314 0.46 23 Phylogenomic databases
PANTHER 281924 270319 0.50 21 Family and domain databases
PATRIC 92190 92190 0.16 39 Genome annotation databases
PaxDb 125239 125239 0.22 33 Proteomic databases
PDB 185407 28253 0.33 27 3D structure databases
PDBsum 185407 28253 0.33 26 3D structure databases
PeptideAtlas 32498 32498 0.06 55 Proteomic databases
PeroxiBase 782 760 <0.01 134 Protein family/group databases
Pfam 780967 522456 1.39 4 Family and domain databases
PharmGKB 18317 18299 0.03 75 Organism-specific databases
Pharos 20115 20115 0.04 72 Other
PhosphoSitePlus 39063 39063 0.07 53 PTM databases
PhylomeDB 96854 96854 0.17 38 Phylogenomic databases
PIR 124204 113945 0.22 34 Sequence databases
PIRSF 109036 108007 0.19 35 Family and domain databases
PlantReactome 941 671 <0.01 132 Enzyme and pathway databases
PomBase 5132 5128 0.01 100 Organism-specific databases
PRIDE 234554 234554 0.42 24 Proteomic databases
PRINTS 130484 115770 0.23 31 Family and domain databases
PRO 96901 96901 0.17 37 Other
ProMEX 464 464 <0.01 143 Proteomic databases
PROSITE 474058 301613 0.84 10 Family and domain databases
Proteomes 485417 460429 0.86 9 Other
ProteomicsDB 40928 19823 0.07 52 Proteomic databases
PseudoCAP 1347 1338 <0.01 126 Organism-specific databases
Reactome 128874 36599 0.23 32 Enzyme and pathway databases
REBASE 618 378 <0.01 137 Protein family/group databases
RefSeq 612079 466171 1.09 6 Sequence databases
REPRODUCTION-2DPAGE 1259 1038 <0.01 127 2D gel databases
RGD 8009 8007 0.01 92 Organism-specific databases
RNAct 43016 43016 0.08 51 Other
SABIO-RK 4376 4376 0.01 105 Enzyme and pathway databases
SFLD 8110 6020 0.01 91 Family and domain databases
SGD 6740 6735 0.01 96 Organism-specific databases
SignaLink 3098 3098 0.01 112 Enzyme and pathway databases
SIGNOR 4277 4277 0.01 106 Enzyme and pathway databases
SMART 193215 142455 0.34 25 Family and domain databases
SMR 445955 445955 0.79 11 3D structure databases
STRING 328771 328771 0.59 18 Protein-protein interaction databases
SUPFAM 503351 381275 0.90 8 Family and domain databases
SWISS-2DPAGE 1177 1177 <0.01 128 2D gel databases
SwissLipids 1397 1310 <0.01 124 Chemistry
SwissPalm 8605 8605 0.02 90 PTM databases
TAIR 14724 14668 0.03 84 Organism-specific databases
TCDB 7248 7197 0.01 95 Protein family/group databases
TIGRFAMs 292614 272607 0.52 19 Family and domain databases
TopDownProteomics 3259 2973 0.01 110 Proteomic databases
TreeFam 45623 45618 0.08 50 Phylogenomic databases
TubercuList 2209 2173 <0.01 117 Organism-specific databases
UCD-2DPAGE 496 496 <0.01 142 2D gel databases
UCSC 50160 45784 0.09 47 Genome annotation databases
UniCarbKB 584 584 <0.01 138 PTM databases
UniLectin 275 275 <0.01 148 Protein family/group databases
UniPathway 137070 124122 0.24 30 Enzyme and pathway databases
VectorBase 581 502 <0.01 140 Genome annotation databases
VGNC 3938 3938 0.01 109 Organism-specific databases
WBParaSite 31 31 <0.01 156 Genome annotation databases
World-2DPAGE 931 920 <0.01 133 2D gel databases
WormBase 6232 4704 0.01 97 Organism-specific databases
Xenbase 5011 4980 0.01 101 Organism-specific databases
ZFIN 3116 3111 0.01 111 Organism-specific databases
Total number of cross-referenced databases: 156
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) 6.73 Lys (K) 5.81 Thr (T) 5.35
Asn (N) 4.06 Gly (G) 7.08 Met (M) 2.41 Trp (W) 1.09
Asp (D) 5.46 His (H) 2.27 Phe (F) 3.86 Tyr (Y) 2.92
Cys (C) 1.38 Ile (I) 5.92 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 3920 are encoded on a plasmid.
12188 entries are encoded on a plastid,
of which 21 are encoded on apicoplasts,
11623 on chloroplasts,
51 on organellar chromatophores,
145 on cyanelles,
149 on non-photosynthetic plastids and
199 on unspecified types of plastid.
Number of entries with at least one sequence correction: 79716