UniProtKB/Swiss-Prot protein knowledgebase release 2020_01 statistics
1. INTRODUCTION
Release 2020_01 of 26-Feb-20 of UniProtKB/Swiss-Prot contains 561911 sequence entries,
comprising 202173710 amino acids abstracted from 270528 references.
348 sequences have been added since release 2019_11, the sequence data of
21 existing entries has been updated and the annotations of
481746 entries have been revised.
Number of fragments: 9207
Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 40255
Protein existence (PE): entries %
1: Evidence at protein level 102492 18.2%
2: Evidence at transcript level 57229 10.2%
3: Inferred from homology 386968 68.9%
4: Predicted 13385 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: 13875
The first twenty species represent 121183 sequences: 21.6 % of the total
number of entries.
2.1 Table of the frequency of occurrence of species
Species represented 1x: 5706
2x: 1993
3x: 1079
4x: 706
5x: 516
6x: 408
7x: 312
8x: 253
9x: 230
10x: 144
11- 20x: 788
21- 50x: 465
51-100x: 222
>100x: 1053
2.2 Table of the most represented species
------ --------- --------------------------------------------
Number Frequency Species
------ --------- --------------------------------------------
1 20365 Homo sapiens (Human)
2 17033 Mus musculus (Mouse)
3 15940 Arabidopsis thaliana (Mouse-ear cress)
4 8091 Rattus norvegicus (Rat)
5 6721 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
6 6011 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 4114 Caenorhabditis elegans
12 4070 Oryza sativa subsp. japonica (Rice)
13 3602 Drosophila melanogaster (Fruit fly)
14 3448 Xenopus laevis (African clawed frog)
15 3147 Danio rerio (Zebrafish) (Brachydanio rerio)
16 2292 Gallus gallus (Chicken)
17 2218 Pongo abelii (Sumatran orangutan) (Pongo pygmaeus abelii)
18 2198 Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
19 2040 Escherichia coli O157:H7
20 1898 Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)
21 1800 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 1697 Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)
26 1685 Shigella flexneri
27 1433 Sus scrofa (Pig)
28 1364 Pseudomonas aeruginosa
29 1347 Salmonella typhi
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)
36 986 Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
37 941 Staphylococcus aureus (strain Mu50 / ATCC 700699)
38 941 Emericella nidulans
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)
48 890 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
54 864 Neurospora crassa
55 863 Yersinia pseudotuberculosis serotype I (strain IP32953)
56 845 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)
63 824 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)
73 771 Escherichia coli O127:H6 (strain E2348/69 / EPEC)
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)
80 760 Staphylococcus epidermidis (strain ATCC 35984 / RP62A)
81 760 Shigella flexneri serotype 5b (strain 8401)
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 Escherichia coli O157:H7 (strain EC4115 / EHEC)
87 748 Photorhabdus laumondii subsp. laumondii (strain DSM 15139 / CIP 105565 / TT01)
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 Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)
98 715 Enterobacter sp. (strain 638)
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 agona (strain SL483)
103 713 Salmonella newport (strain SL254)
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 Klebsiella pneumoniae (strain 342)
109 698 Shigella boydii serotype 18 (strain CDC 3083-94 / BS512)
110 695 Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73)
111 693 Pan troglodytes (Chimpanzee)
112 692 Nostoc sp. (strain PCC 7120 / 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 Bradyrhizobium diazoefficiens
124 664 Yarrowia lipolytica (strain CLIB 122 / E 150) (Yeast) (Candida lipolytica)
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 Methanothermobacter thermautotrophicus
134 622 Treponema pallidum (strain Nichols)
135 622 Cronobacter sakazakii (strain ATCC BAA-894) (Enterobacter sakazakii)
136 618 Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)
137 615 Xanthomonas campestris pv. campestris
138 614 Staphylococcus haemolyticus (strain JCSC1435)
139 611 Mesorhizobium japonicum (Mesorhizobium loti
140 608 Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
141 603 Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)
142 603 Ralstonia solanacearum (strain GMI1000) (Pseudomonas solanacearum)
143 602 Staphylococcus saprophyticus subsp. saprophyticus
144 602 Photobacterium profundum (strain SS9)
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)
167 556 Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
168 555 Pseudomonas fluorescens (strain Pf0-1)
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)
184 516 Deinococcus radiodurans
185 515 Aspergillus oryzae (strain ATCC 42149 / RIB 40) (Yellow koji mold)
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 Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)
190 511 Streptomyces avermitilis
191 510 Haemophilus ducreyi (strain 35000HP / ATCC 700724)
192 510 Geobacillus kaustophilus (strain HTA426)
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 Bacillus clausii (strain KSM-K16)
201 496 Burkholderia pseudomallei (strain K96243)
202 496 Rickettsia conorii (strain ATCC VR-613 / Malish 7)
203 494 Proteus mirabilis (strain HI4320)
204 493 Pyrococcus horikoshii
205 493 Xanthomonas campestris pv. campestris (strain 8004)
206 492 Bacillus velezensis (strain DSM 23117 / BGSC 10A6 / FZB42)
207 491 Vibrio campbellii (strain ATCC BAA-1116 / BB120)
208 491 Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1)
209 488 Methanosarcina mazei
210 487 Shewanella sp. (strain MR-7)
211 486 Brucella abortus (strain 2308)
212 486 Mannheimia succiniciproducens (strain MBEL55E)
213 485 Thermosynechococcus elongatus (strain BP-1)
214 484 Staphylococcus aureus (strain Mu3 / ATCC 700698)
215 484 Shewanella sp. (strain MR-4)
216 484 Pseudomonas aeruginosa (strain LESB58)
217 483 Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195)
218 482 Streptococcus pneumoniae (strain ATCC BAA-255 / R6)
219 482 Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
220 480 Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)
221 480 Solanum lycopersicum (Tomato) (Lycopersicon esculentum)
222 480 Synechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)
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)
234 467 Enterococcus faecalis (strain ATCC 700802 / V583)
235 467 Aeromonas hydrophila subsp. hydrophila
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 Ovis aries (Sheep)
241 459 Cupriavidus pinatubonensis (strain JMP 134 / LMG 1197) (Cupriavidus necator
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 Shewanella baltica (strain OS185)
246 455 Xanthomonas oryzae pv. oryzae (strain MAFF 311018)
247 453 Pseudomonas putida (strain W619)
248 453 Streptococcus mutans serotype c (strain ATCC 700610 / UA159)
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 19599 ( 3%)
Bacteria 334434 ( 60%)
Eukaryota 190885 ( 34%)
Viruses 16993 ( 3%)
Within Eukaryota:
Category sequences (% of Eukaryota) (% of the complete database)
Human 20366 ( 11%) ( 4%)
Other Mammalia 46865 ( 25%) ( 8%)
Other Vertebrata 18448 ( 10%) ( 3%)
Viridiplantae 40254 ( 21%) ( 7%)
Fungi 34414 ( 18%) ( 6%)
Insecta 9358 ( 5%) ( 2%)
Nematoda 5024 ( 3%) ( 1%)
Other 16156 ( 8%) ( 3%)
3. SEQUENCE SIZE
Repartition of the sequences by size (excluding fragments)
From To Number From To Number
1- 50 9677 1001-1100 4027
51- 100 42796 1101-1200 2819
101- 150 59316 1201-1300 2153
151- 200 59080 1301-1400 2022
201- 250 57940 1401-1500 1632
251- 300 51698 1501-1600 801
301- 350 52068 1601-1700 621
351- 400 45164 1701-1800 566
401- 450 37169 1801-1900 483
451- 500 30000 1901-2000 382
501- 550 21718 2001-2100 254
551- 600 15466 2101-2200 351
601- 650 12898 2201-2300 323
651- 700 9263 2301-2400 218
701- 750 7690 2401-2500 170
751- 800 5568 >2500 1334
801- 850 4804
851- 900 5226
901- 950 4059
951-1000 2948
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: 2851
4.1 Table of the frequency of journal citations
Journals cited 1x: 912
2x: 399
3x: 173
4x: 130
5x: 116
6x: 91
7x: 77
8x: 60
9x: 38
10x: 37
11- 20x: 226
21- 50x: 232
51-100x: 124
>100x: 236
4.2 List of the most cited journals in UniProtKB/Swiss-Prot
Nb Citations Journal name
-- --------- -------------------------------------------------------------
1 25081 Journal of Biological Chemistry
2 11697 Proceedings of the National Academy of Sciences of the U.S.A.
3 6730 Journal of Bacteriology
4 5713 Biochemical and Biophysical Research Communications
5 5425 Biochemistry
6 5053 Nucleic Acids Research
7 4870 FEBS Letters
8 4824 Gene
9 4731 The EMBO Journal
10 4646 Nature
11 4392 Molecular and Cellular Biology
12 4328 Journal of Molecular Biology
13 3723 Biochimica et Biophysica Acta
14 3618 Cell
15 3421 European Journal of Biochemistry
16 3307 Journal of Virology
17 3077 Science
18 2909 Biochemical Journal
19 2620 Plant Physiology
20 2593 Molecular Microbiology
21 2537 Genomics
22 2222 Journal of Cell Biology
23 2220 The American Journal of Human Genetics
24 2054 PLoS ONE
25 2045 The Plant Cell
26 1893 The Plant Journal
27 1878 Plant Molecular Biology
28 1858 Human Molecular Genetics
29 1852 Genes and Development
30 1816 Virology
31 1778 Nature Genetics
32 1697 Molecular Biology of the Cell
33 1689 Development
34 1583 Human Mutation
35 1578 Molecular Cell
36 1543 Oncogene
37 1512 Journal of Immunology
38 1396 Molecular and General Genetics
39 1372 Structure
40 1359 Journal of Biochemistry
41 1329 Genetics
42 1285 Journal of Cell Science
43 1178 Blood
44 1155 Infection and Immunity
45 1151 Journal of General Virology
46 1085 Microbiology
47 1073 Current Biology
48 1067 Archives of Biochemistry and Biophysics
49 1062 Developmental Biology
50 933 Applied and Environmental Microbiology
51 931 Journal of Neuroscience
52 904 Acta Crystallographica, Section D
53 889 Cancer Research
54 847 FEMS Microbiology Letters
55 839 Yeast
56 799 Toxicon
57 789 Protein Science
58 771 Neuron
59 754 Journal of Clinical Investigation
60 709 Plant and Cell Physiology
61 704 Human Genetics
62 703 American Journal of Physiology
63 703 PLoS Genetics
64 669 The Journal of Experimental Medicine
65 649 Mechanisms of Development
66 646 Nature Structural Biology
67 641 Proteins
68 630 Journal of Medical Genetics
69 586 Nature Cell Biology
70 575 Current Genetics
71 558 Nature Structural and Molecular Biology
72 557 Bioscience, Biotechnology, and Biochemistry
73 553 Nature Communications
74 543 The FEBS Journal
75 542 Journal of Neurochemistry
76 540 Molecular Endocrinology
77 526 Developmental Cell
78 523 The Journal of Clinical Endocrinology and Metabolism
79 509 Endocrinology
80 494 Antimicrobial Agents and Chemotherapy
81 488 Mammalian Genome
82 465 Experimental Cell Research
83 461 Scientific Reports
84 451 Molecular and Biochemical Parasitology
85 435 Planta
86 434 Eukaryotic Cell
87 430 Immunogenetics
88 424 PLoS Pathogens
89 421 RNA
90 420 Peptides
91 407 Journal of Molecular Evolution
92 403 Journal of the American Chemical Society
93 400 Molecular Biology and Evolution
94 399 Journal of Experimental Botany
95 388 DNA and Cell Biology
96 385 Molecular Pharmacology
97 375 EMBO Reports
98 375 DNA Sequence
99 374 The FASEB Journal
100 372 Neurology
101 372 Acta Crystallographica, Section F
102 372 American Journal of Medical Genetics. Part A
103 370 Journal of Investigative Dermatology
104 366 Molecular Plant-Microbe Interactions
105 360 European Journal of Human Genetics
106 351 Biology of Reproduction
107 351 Comparative Biochemistry and Physiology
108 348 Immunity
109 340 Brain Research. Molecular Brain Research
110 331 Virus Research
111 329 Genes to Cells
112 329 Biochimie
113 322 The New England Journal of Medicine
114 318 Developmental Dynamics
115 315 Clinical Genetics
116 302 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
123 278 Investigative Ophthalmology and Visual Science
124 272 Journal of General Microbiology
125 270 Applied Microbiology and Biotechnology
126 268 Journal of Lipid Research
127 266 Journal of Human Genetics
128 263 PLoS Biology
129 262 Journal of Medicinal Chemistry
130 256 Cell Reports
131 249 Archives of Microbiology
132 247 Glycobiology
133 238 Molecular Immunology
134 236 Journal of Cellular Biochemistry
135 234 Traffic
136 232 DNA Research
137 228 Molecular Genetics and Metabolism
138 225 Cell Cycle
139 219 Diabetes
140 218 Hoppe-Seyler's Zeitschrift fur Physiologische Chemie
141 217 Circulation Research
142 217 Archives of Virology
143 215 Protein Expression and Purification
144 214 Phytochemistry
145 211 Nature Medicine
146 209 Fungal Genetics and Biology
147 208 Molecular and Cellular Endocrinology
148 198 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) 1238044 2.20
Journal 1061941 459397 1.89 1
Submitted to EMBL/GenBank/DDBJ 165086 149506 0.29 2
Submitted to other databases 7469 6889 0.01 3
Book citation 1831 1808 <0.01 4
Plant Gene Register 612 599 <0.01 5
Unpublished observations 452 448 <0.01 6
Thesis 437 434 <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: 420626
Total Number of Average
Line type / subtype number entries per entry Rank
------------------------------------ -------- --------- --------- ----
Comments (CC) 2583519 4.60
ACTIVITY REGULATION 15513 15511 0.03 17
ALLERGEN 884 884 <0.01 26
ALTERNATIVE PRODUCTS 25382 25382 0.05 13
BIOPHYSICOCHEMICAL PROPERTIES 8871 8869 0.02 20
BIOTECHNOLOGY 1169 1152 <0.01 25
CATALYTIC ACTIVITY 296161 241050 0.53 4
CAUTION 13280 13013 0.02 18
COFACTOR 126965 115412 0.23 7
DEVELOPMENTAL STAGE 12541 12539 0.02 19
DISEASE 7318 4922 0.01 21
DISRUPTION PHENOTYPE 15649 15645 0.03 16
DOMAIN 50840 43554 0.09 9
FUNCTION 471003 449818 0.84 2
INDUCTION 22003 21986 0.04 14
INTERACTION 19609 19609 0.03 15
MASS SPECTROMETRY 6884 5293 0.01 23
MISCELLANEOUS 43815 38512 0.08 12
PATHWAY 139855 126752 0.25 6
PHARMACEUTICAL 126 121 <0.01 29
POLYMORPHISM 1275 1220 <0.01 24
PTM 58321 42691 0.10 8
RNA EDITING 627 627 <0.01 28
SEQUENCE CAUTION 44394 44319 0.08 11
SIMILARITY 510786 506609 0.91 1
SUBCELLULAR LOCATION 351934 344310 0.63 3
SUBUNIT 283725 280520 0.50 5
TISSUE SPECIFICITY 46968 46960 0.08 10
TOXIC DOSE 677 618 <0.01 27
WEB RESOURCE 6944 5768 0.01 22
Total number of comment topics: 29
Total Number of Average
Line type / subtype number entries per entry Rank
------------------------------------ -------- --------- --------- ----
Features (FT) 4596622 8.18
ACT_SITE 165728 100393 0.29 10
BINDING 410136 108899 0.73 2
CA_BIND 4206 1743 0.01 36
CARBOHYD 117719 30242 0.21 15
CHAIN 570050 554752 1.01 1
COILED 22118 15311 0.04 27
COMPBIAS 59195 31844 0.11 21
CONFLICT 136698 47695 0.24 13
CROSSLNK 23855 8561 0.04 26
DISULFID 127062 34093 0.23 14
DNA_BIND 11901 10643 0.02 32
DOMAIN 200711 123304 0.36 9
HELIX 270019 24645 0.48 6
INIT_MET 17347 17299 0.03 28
INTRAMEM 2793 1277 <0.01 37
LIPID 13228 8531 0.02 30
METAL 399881 96946 0.71 3
MOD_RES 254747 72442 0.45 7
MOTIF 44347 28979 0.08 23
MUTAGEN 75598 16365 0.13 18
NON_CONS 2523 820 <0.01 38
NON_STD 357 282 <0.01 39
NON_TER 12521 9596 0.02 31
NP_BIND 158820 86189 0.28 11
PEPTIDE 11715 8073 0.02 33
PROPEP 14394 12278 0.03 29
REGION 202941 95278 0.36 8
REPEAT 106369 14861 0.19 16
SIGNAL 42577 42576 0.08 24
SITE 60160 32526 0.11 20
STRAND 280293 23229 0.50 5
TOPO_DOM 143488 29267 0.26 12
TRANSIT 9176 9060 0.02 34
TRANSMEM 373201 78004 0.66 4
TURN 65106 20029 0.12 19
UNSURE 5577 839 0.01 35
VAR_SEQ 52251 22156 0.09 22
VARIANT 97748 17130 0.17 17
ZN_FING 30066 12847 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) 18788385 33.44
ABCD 1609 1609 <0.01 122 Protocols and materials databases
Allergome 1949 1265 <0.01 120 Protein family/group databases
ArachnoServer 1163 1154 <0.01 129 Organism-specific databases
Araport 15960 15864 0.03 82 Organism-specific databases
Bgee 56822 56822 0.10 41 Gene expression databases
BindingDB 5190 5190 0.01 99 Chemistry
BioCyc 270236 244641 0.48 22 Enzyme and pathway databases
BioGrid 54724 53034 0.10 45 Protein-protein interaction databases
BioMuta 20314 20299 0.04 68 Polymorphism and mutation databases
BRENDA 12963 12181 0.02 85 Enzyme and pathway databases
CarbonylDB 1157 1157 <0.01 131 PTM databases
CAZy 9521 8582 0.02 89 Protein family/group databases
CCDS 48836 34349 0.09 49 Sequence databases
CDD 184452 167372 0.33 28 Family and domain databases
CGD 1999 1982 <0.01 119 Organism-specific databases
ChEMBL 7270 7149 0.01 95 Chemistry
ChiTaRS 29618 29581 0.05 55 Other
CollecTF 135 135 <0.01 152 Gene expression databases
ComplexPortal 9521 5127 0.02 88 Protein-protein interaction databases
COMPLUYEAST-2DPAGE 97 97 <0.01 153 2D gel databases
ConoServer 954 870 <0.01 132 Organism-specific databases
CORUM 5805 5805 0.01 98 Protein-protein interaction databases
CPTAC 2221 1423 <0.01 116 Proteomic databases
CTD 75252 74359 0.13 40 Organism-specific databases
DEPOD 239 239 <0.01 150 PTM databases
dictyBase 4214 4100 0.01 107 Organism-specific databases
DIP 17416 17384 0.03 78 Protein-protein interaction databases
DisGeNET 15647 15416 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 19042 18976 0.03 73 Protocols and materials databases
DOSAC-COBS-2DPAGE 145 145 <0.01 151 2D gel databases
DrugBank 27238 4518 0.05 61 Chemistry
DrugCentral 2532 2532 <0.01 114 Chemistry
EchoBASE 4159 4159 0.01 108 Organism-specific databases
eggNOG 666755 332642 1.19 5 Phylogenomic databases
ELM 1811 1811 <0.01 121 Protein-protein interaction databases
EMBL 986505 549843 1.76 3 Sequence databases
Ensembl 97220 51075 0.17 36 Genome annotation databases
EnsemblBacteria 356093 336904 0.63 16 Genome annotation databases
EnsemblFungi 29602 28045 0.05 56 Genome annotation databases
EnsemblMetazoa 17763 10373 0.03 76 Genome annotation databases
EnsemblPlants 28151 21072 0.05 58 Genome annotation databases
EnsemblProtists 5009 4830 0.01 102 Genome annotation databases
EPD 22051 22051 0.04 65 Proteomic databases
ESTHER 2547 2546 <0.01 113 Protein family/group databases
euHCVdb 55 44 <0.01 155 Organism-specific databases
EuPathDB 19720 19708 0.04 72 Organism-specific databases
EvolutionaryTrace 16635 16635 0.03 80 Other
ExpressionAtlas 50585 50585 0.09 47 Gene expression databases
FlyBase 4907 4781 0.01 103 Organism-specific databases
Gene3D 403258 315002 0.72 15 Family and domain databases
GeneCards 20342 20164 0.04 67 Organism-specific databases
GeneDB 582 526 <0.01 139 Genome annotation databases
GeneID 290782 281145 0.52 20 Genome annotation databases
GeneReviews 1479 1475 <0.01 123 Organism-specific databases
GeneTree 56127 56087 0.10 42 Phylogenomic databases
Genevisible 55238 55238 0.10 43 Gene expression databases
GeneWiki 10350 10267 0.02 87 Other
GenomeRNAi 22154 22154 0.04 64 Other
GlyConnect 2250 2109 <0.01 115 PTM databases
GO 3051756 536848 5.43 1 Ontologies
Gramene 28151 21072 0.05 59 Genome annotation databases
GuidetoPHARMACOLOGY 2019 2019 <0.01 118 Chemistry
HAMAP 330210 327290 0.59 17 Family and domain databases
HGNC 20310 20171 0.04 69 Organism-specific databases
HOGENOM 422973 422973 0.75 12 Phylogenomic databases
HPA 27767 16842 0.05 60 Organism-specific databases
IMGT_GENE-DB 266 266 <0.01 149 Protein family/group databases
InParanoid 139944 139944 0.25 29 Phylogenomic databases
IntAct 54811 54811 0.10 44 Protein-protein interaction databases
InterPro 2294446 543080 4.08 2 Family and domain databases
iPTMnet 52606 52606 0.09 46 PTM databases
jPOST 26777 26777 0.05 62 Proteomic databases
KEGG 505051 476107 0.90 8 Genome annotation databases
KO 408677 408229 0.73 14 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 4666 4662 0.01 104 Organism-specific databases
MassIVE 17476 17476 0.03 77 Proteomic databases
MaxQB 29591 29591 0.05 57 Proteomic databases
MEROPS 11461 11459 0.02 86 Protein family/group databases
MGI 16943 16903 0.03 79 Organism-specific databases
MIM 21465 15210 0.04 66 Organism-specific databases
MINT 22789 22789 0.04 63 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 20262 20262 0.04 70 Organism-specific databases
NIAGADS 68 68 <0.01 154 Organism-specific databases
OGP 373 373 <0.01 144 2D gel databases
OMA 411947 411947 0.73 13 Phylogenomic databases
OpenTargets 18430 18277 0.03 74 Organism-specific databases
Orphanet 7598 4044 0.01 93 Organism-specific databases
OrthoDB 257404 257404 0.46 23 Phylogenomic databases
PANTHER 281985 270380 0.50 21 Family and domain databases
PATRIC 92257 92257 0.16 39 Genome annotation databases
PaxDb 125298 125298 0.22 33 Proteomic databases
PDB 187425 28468 0.33 26 3D structure databases
PDBsum 187425 28468 0.33 27 3D structure databases
PeptideAtlas 32511 32511 0.06 54 Proteomic databases
PeroxiBase 782 760 <0.01 134 Protein family/group databases
Pfam 781339 522662 1.39 4 Family and domain databases
PharmGKB 18319 18301 0.03 75 Organism-specific databases
Pharos 20113 20113 0.04 71 Other
PhosphoSitePlus 39067 39067 0.07 53 PTM databases
PhylomeDB 96874 96874 0.17 38 Phylogenomic databases
PIR 124265 114006 0.22 34 Sequence databases
PIRSF 109035 108006 0.19 35 Family and domain databases
PlantReactome 1159 713 <0.01 130 Enzyme and pathway databases
PomBase 5132 5128 0.01 100 Organism-specific databases
PRIDE 234597 234597 0.42 24 Proteomic databases
PRINTS 130594 115840 0.23 31 Family and domain databases
PRO 96901 96901 0.17 37 Other
ProMEX 466 466 <0.01 143 Proteomic databases
PROSITE 474504 301853 0.84 10 Family and domain databases
Proteomes 521667 461267 0.93 7 Other
ProteomicsDB 40932 19821 0.07 52 Proteomic databases
PseudoCAP 1371 1362 <0.01 126 Organism-specific databases
Reactome 128887 36607 0.23 32 Enzyme and pathway databases
REBASE 618 378 <0.01 137 Protein family/group databases
RefSeq 613481 467463 1.09 6 Sequence databases
REPRODUCTION-2DPAGE 1259 1038 <0.01 127 2D gel databases
RGD 8015 8013 0.01 92 Organism-specific databases
RNAct 43012 43012 0.08 51 Other
SABIO-RK 4378 4378 0.01 105 Enzyme and pathway databases
SFLD 8113 6023 0.01 91 Family and domain databases
SGD 6740 6735 0.01 96 Organism-specific databases
SignaLink 3100 3100 0.01 112 Enzyme and pathway databases
SIGNOR 4281 4281 0.01 106 Enzyme and pathway databases
SMART 193333 142528 0.34 25 Family and domain databases
SMR 447679 447679 0.80 11 3D structure databases
STRING 328867 328867 0.59 18 Protein-protein interaction databases
SUPFAM 503657 381488 0.90 9 Family and domain databases
SWISS-2DPAGE 1177 1177 <0.01 128 2D gel databases
SwissLipids 1411 1324 <0.01 124 Chemistry
SwissPalm 8609 8609 0.02 90 PTM databases
TAIR 14741 14685 0.03 84 Organism-specific databases
TCDB 7275 7223 0.01 94 Protein family/group databases
TIGRFAMs 292670 272648 0.52 19 Family and domain databases
TopDownProteomics 3236 2959 0.01 110 Proteomic databases
TreeFam 45639 45634 0.08 50 Phylogenomic databases
TubercuList 2216 2180 <0.01 117 Organism-specific databases
UCD-2DPAGE 496 496 <0.01 142 2D gel databases
UCSC 50184 45805 0.09 48 Genome annotation databases
UniCarbKB 584 584 <0.01 138 PTM databases
UniLectin 276 276 <0.01 148 Protein family/group databases
UniPathway 137428 124467 0.24 30 Enzyme and pathway databases
VectorBase 581 502 <0.01 140 Genome annotation databases
VGNC 3965 3954 0.01 109 Organism-specific databases
WBParaSite 4 4 <0.01 156 Genome annotation databases
World-2DPAGE 931 920 <0.01 133 2D gel databases
WormBase 6268 4713 0.01 97 Organism-specific databases
Xenbase 5011 4980 0.01 101 Organism-specific databases
ZFIN 3123 3118 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: 79757