UniProtKB/Swiss-Prot protein knowledgebase release 2025_01 statistics
1. INTRODUCTION
Release 2025_01 of 05-Feb-2025 of UniProtKB/Swiss-Prot contains 572970 sequence
entries, curated from 304124 unique references and comprising 207621817 amino acids.
362 sequences have been added since release 2024_06, the sequence data of
33 existing entries has been updated and the annotations of
454450 entries have been revised.
Number of fragments: 9288
Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 41224
Protein existence (PE): entries %
1: Evidence at protein level 118002 20.6%
2: Evidence at transcript level 54330 9.5%
3: Inferred from homology 385970 67.4%
4: Predicted 12859 2.2%
5: Uncertain 1809 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: 14755
The first twenty species represent 123185 sequences: 21.5 % of the total
number of entries.
2.1 Table of the frequency of occurrence of species
Species represented 1x: 6016
2x: 2138
3x: 1157
4x: 784
5x: 544
6x: 447
7x: 328
8x: 285
9x: 240
10x: 164
11- 20x: 847
21- 50x: 514
51-100x: 231
>100x: 1060
2.2 Table of the most represented species
------ --------- --------------------------------------------
Number Frequency Species
------ --------- --------------------------------------------
1 20417 Homo sapiens (Human)
2 17228 Mus musculus (Mouse)
3 16396 Arabidopsis thaliana (Mouse-ear cress)
4 8209 Rattus norvegicus (Rat)
5 6733 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
6 6048 Bos taurus (Bovine)
7 5121 Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
8 4531 Escherichia coli (strain K12)
9 4489 Caenorhabditis elegans
10 4191 Oryza sativa subsp. japonica (Rice)
11 4191 Bacillus subtilis (strain 168)
12 4160 Dictyostelium discoideum (Social amoeba)
13 3816 Drosophila melanogaster (Fruit fly)
14 3507 Xenopus laevis (African clawed frog)
15 3351 Danio rerio (Zebrafish) (Brachydanio rerio)
16 2325 Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
17 2309 Gallus gallus (Chicken)
18 2218 Pongo abelii (Sumatran orangutan) (Pongo pygmaeus abelii)
19 2046 Escherichia coli O157:H7
20 1899 Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)
21 1830 Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
22 1787 Methanocaldococcus jannaschii
23 1711 Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
24 1704 Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
25 1702 Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)
26 1696 Shigella flexneri
27 1478 Pseudomonas aeruginosa
28 1459 Sus scrofa (Pig)
29 1349 Salmonella typhi
30 1244 Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97)
31 1176 Macaca fascicularis (Crab-eating macaque) (Cynomolgus monkey)
32 1147 Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)
33 1103 Synechocystis sp. (strain ATCC 27184 / PCC 6803 / Kazusa)
34 1038 Archaeoglobus fulgidus
35 1030 Yersinia pestis
36 1021 Emericella nidulans
37 997 Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
38 978 Oryctolagus cuniculus (Rabbit)
39 969 Neurospora crassa
40 942 Staphylococcus aureus (strain Mu50 / ATCC 700699)
41 937 Aspergillus fumigatus (strain ATCC MYA-4609 / CBS 101355 / FGSC A1100 / Af293)
42 930 Salmonella paratyphi A (strain ATCC 9150 / SARB42)
43 929 Staphylococcus aureus (strain N315)
44 928 Eremothecium gossypii
45 919 Kluyveromyces lactis
46 909 Acanthamoeba polyphaga mimivirus (APMV)
47 905 Staphylococcus aureus (strain COL)
48 896 Staphylococcus aureus (strain MW2)
49 894 Escherichia coli O6:K15:H31 (strain 536 / UPEC)
50 890 Staphylococcus aureus (strain MSSA476)
51 888 Staphylococcus aureus (strain MRSA252)
52 888 Candida glabrata
53 888 Rhizobium meliloti (strain 1021) (Ensifer meliloti) (Sinorhizobium meliloti)
54 882 Salmonella choleraesuis (strain SC-B67)
55 879 Shigella sonnei (strain Ss046)
56 873 Oryza sativa subsp. indica (Rice)
57 863 Yersinia pseudotuberculosis serotype I (strain IP32953)
58 854 Canis lupus familiaris (Dog) (Canis familiaris)
59 850 Zea mays (Maize)
60 847 Escherichia coli O9:H4 (strain HS)
61 838 Escherichia coli O139:H28 (strain E24377A / ETEC)
62 829 Shigella boydii serotype 4 (strain Sb227)
63 825 Escherichia coli (strain UTI89 / UPEC)
64 822 Shigella dysenteriae serotype 1 (strain Sd197)
65 822 Escherichia coli
66 819 Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)
67 811 Staphylococcus aureus (strain NCTC 8325 / PS 47)
68 804 Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672)
69 796 Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
70 791 Escherichia coli (strain SMS-3-5 / SECEC)
71 788 Aquifex aeolicus (strain VF5)
72 779 Escherichia coli O127:H6 (strain E2348/69 / EPEC)
73 771 Escherichia coli (strain K12 / DH10B)
74 770 Pasteurella multocida (strain Pm70)
75 767 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 Shigella flexneri serotype 5b (strain 8401)
81 760 Staphylococcus epidermidis
82 759 Escherichia coli O45:K1 (strain S88 / ExPEC)
83 758 Bacillus anthracis
84 756 Escherichia coli (strain SE11)
85 753 Escherichia coli O7:K1 (strain IAI39 / ExPEC)
86 749 Photorhabdus laumondii subsp. laumondii (strain DSM 15139 / CIP 105565 / TT01)
87 748 Escherichia coli O157:H7 (strain EC4115 / EHEC)
88 744 Halalkalibacterium halodurans
89 739 Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 8081)
90 737 Pseudomonas putida
91 733 Vibrio vulnificus (strain CMCP6)
92 731 Escherichia coli O81 (strain ED1a)
93 724 Escherichia coli
94 722 Salmonella enteritidis PT4 (strain P125109)
95 718 Vibrio vulnificus (strain YJ016)
96 716 Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7)
97 715 Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)
98 715 Escherichia coli O1:K1 / APEC
99 715 Enterobacter sp. (strain 638)
100 715 Yersinia pestis bv. Antiqua (strain Nepal516)
101 714 Salmonella paratyphi A (strain AKU_12601)
102 713 Salmonella agona (strain SL483)
103 713 Salmonella newport (strain SL254)
104 713 Yersinia pseudotuberculosis serotype O:1b (strain IP 31758)
105 712 Salmonella schwarzengrund (strain CVM19633)
106 711 Yersinia pestis bv. Antiqua (strain Antiqua)
107 710 Salmonella heidelberg (strain SL476)
108 708 Nostoc sp. (strain PCC 7120 / SAG 25.82 / UTEX 2576)
109 702 Salmonella dublin (strain CT_02021853)
110 699 Klebsiella pneumoniae (strain 342)
111 698 Shigella boydii serotype 18 (strain CDC 3083-94 / BS512)
112 695 Escherichia fergusonii
113 692 Pan troglodytes (Chimpanzee)
114 686 Mycoplasma pneumoniae (strain ATCC 29342 / M129 / Subtype 1)
115 684 Salmonella gallinarum (strain 287/91 / NCTC 13346)
116 683 Pseudomonas syringae pv. tomato (strain ATCC BAA-871 / DC3000)
117 679 Staphylococcus aureus (strain USA300)
118 679 Citrobacter koseri (strain ATCC BAA-895 / CDC 4225-83 / SGSC4696)
119 672 Serratia proteamaculans (strain 568)
120 670 Bacillus cereus
121 669 Agrobacterium fabrum (strain C58 / ATCC 33970) (Agrobacterium tumefaciens
122 669 Mycobacterium leprae (strain TN)
123 667 Bradyrhizobium diazoefficiens
124 667 Yersinia pestis (strain Pestoides F)
125 667 Yarrowia lipolytica (strain CLIB 122 / E 150) (Yeast) (Candida lipolytica)
126 663 Shewanella oneidensis
127 658 Sinorhizobium fredii (strain NBRC 101917 / NGR234)
128 653 Debaryomyces hansenii
129 643 Staphylococcus aureus (strain bovine RF122 / ET3-1)
130 642 Yersinia pseudotuberculosis serotype O:3 (strain YPIII)
131 642 Salmonella arizonae (strain ATCC BAA-731 / CDC346-86 / RSK2980)
132 634 Yersinia pseudotuberculosis serotype IB (strain PB1/+)
133 623 Methanothermobacter thermautotrophicus
134 622 Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)
135 622 Cronobacter sakazakii (strain ATCC BAA-894) (Enterobacter sakazakii)
136 622 Treponema pallidum (strain Nichols)
137 620 Pseudomonas aeruginosa (strain UCBPP-PA14)
138 615 Xanthomonas campestris pv. campestris
139 614 Staphylococcus haemolyticus (strain JCSC1435)
140 613 Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
141 613 Mesorhizobium japonicum (Mesorhizobium loti
142 605 Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)
143 604 Ralstonia nicotianae (strain ATCC BAA-1114 / GMI1000) (Ralstonia solanacearum)
144 602 Photobacterium profundum (strain SS9)
145 602 Staphylococcus saprophyticus subsp. saprophyticus
146 601 Salmonella paratyphi C (strain RKS4594)
147 600 Yersinia pestis bv. Antiqua (strain Angola)
148 595 Bacillus cereus (strain ATCC 10987 / NRS 248)
149 594 Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)
150 591 Pectobacterium carotovorum subsp. carotovorum (strain PC1)
151 589 Neisseria meningitidis serogroup B (strain ATCC BAA-335 / MC58)
152 584 Rickettsia prowazekii (strain Madrid E)
153 582 Caenorhabditis briggsae
154 581 Aspergillus oryzae (strain ATCC 42149 / RIB 40) (Yellow koji mold)
155 579 Brucella suis biovar 1 (strain 1330)
156 576 Brucella melitensis biotype 1
157 575 Caulobacter vibrioides (strain ATCC 19089 / CIP 103742 / CB 15)
158 573 Aliivibrio fischeri (strain ATCC 700601 / ES114) (Vibrio fischeri)
159 572 Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS)
160 569 Bacillus thuringiensis subsp. konkukian (strain 97-27)
161 568 Pseudomonas syringae pv. syringae (strain B728a)
162 568 Helicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99)
163 566 Bacillus licheniformis
164 566 Thermotoga maritima
165 562 Buchnera aphidicola subsp. Schizaphis graminum (strain Sg)
166 562 Bacillus cereus (strain ZK / E33L)
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
174 543 Corynebacterium glutamicum
175 541 Lactococcus lactis subsp. lactis (strain IL1403) (Streptococcus lactis)
176 531 Erwinia tasmaniensis
177 530 Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50)
178 530 Listeria monocytogenes serotype 4b (strain F2365)
179 529 Sodalis glossinidius (strain morsitans)
180 524 Staphylococcus aureus (strain Newman)
181 523 Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)
182 522 Xylella fastidiosa (strain 9a5c)
183 522 Deinococcus radiodurans
184 519 Chromobacterium violaceum
185 519 Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)
186 519 Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 / JCM 12185 / C2A)
187 516 Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251)
188 515 Xylella fastidiosa (strain Temecula1 / ATCC 700964)
189 512 Pseudomonas aeruginosa (strain PA7)
190 512 Geobacillus kaustophilus (strain HTA426)
191 512 Haemophilus ducreyi (strain 35000HP / ATCC 700724)
192 511 Streptomyces avermitilis
193 511 Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1)
194 509 Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
195 508 Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253)
196 508 Solanum lycopersicum (Tomato) (Lycopersicon esculentum)
197 507 Streptococcus pneumoniae (strain ATCC BAA-255 / R6)
198 507 Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp)
199 505 Nicotiana tabacum (Common tobacco)
200 504 Pseudomonas entomophila (strain L48)
201 501 Methanosarcina mazei
202 499 Brucella abortus biovar 1 (strain 9-941)
203 499 Haemophilus influenzae (strain 86-028NP)
204 498 Thermosynechococcus vestitus (strain NIES-2133 / IAM M-273 / BP-1)
205 497 Synechococcus elongatus (strain ATCC 33912 / PCC 7942 / FACHB-805)
206 497 Pyrococcus horikoshii
207 497 Proteus mirabilis (strain HI4320)
208 497 Burkholderia pseudomallei (strain K96243)
209 496 Rickettsia conorii (strain ATCC VR-613 / Malish 7)
210 496 Shouchella clausii (strain KSM-K16) (Alkalihalobacillus clausii)
211 496 Xanthomonas campestris pv. campestris (strain 8004)
212 494 Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
213 494 Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1)
214 492 Brucella abortus (strain 2308)
215 492 Bacillus velezensis (strain DSM 23117 / BGSC 10A6 / LMG 26770 / FZB42)
216 491 Vibrio campbellii (strain ATCC BAA-1116)
217 488 Shewanella sp. (strain MR-7)
218 486 Mannheimia succiniciproducens (strain KCTC 0769BP / MBEL55E)
219 485 Shewanella sp. (strain MR-4)
220 484 Pseudomonas aeruginosa (strain LESB58)
221 484 Staphylococcus aureus (strain Mu3 / ATCC 700698)
222 483 Mycoplasma genitalium (strain ATCC 33530 / DSM 19775 / NCTC 10195 / G37)
223 483 Lactiplantibacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)
224 480 Pseudomonas putida
225 478 Pyrococcus abyssi (strain GE5 / Orsay)
226 478 Cupriavidus necator
227 475 Burkholderia lata
228 475 Campylobacter jejuni subsp. jejuni serotype O:2
229 472 Enterococcus faecalis (strain ATCC 700802 / V583)
230 472 Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)
231 471 Cereibacter sphaeroides
232 470 Clostridium perfringens (strain 13 / Type A)
233 468 Pseudomonas putida (strain GB-1)
234 468 Shewanella sp. (strain ANA-3)
235 467 Aeromonas hydrophila subsp. hydrophila
236 467 Shewanella frigidimarina (strain NCIMB 400)
237 466 Xanthomonas euvesicatoria pv. vesicatoria (strain 85-10)
238 465 Trichormus variabilis (strain ATCC 29413 / PCC 7937) (Anabaena variabilis)
239 463 Burkholderia mallei (strain ATCC 23344)
240 461 Ovis aries (Sheep)
241 461 Cupriavidus pinatubonensis (strain JMP 134 / LMG 1197) (Cupriavidus necator
242 460 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 Pseudomonas putida (strain W619)
248 453 Mycolicibacterium paratuberculosis (strain ATCC BAA-968 / K-10)
249 453 Streptococcus mutans serotype c (strain ATCC 700610 / UA159)
250 452 Aeromonas salmonicida (strain A449)
2.3 Taxonomic distribution of the sequences
Kingdom sequences (% of the database)
Archaea 19794 ( 3%)
Bacteria 336739 ( 59%)
Eukaryota 198986 ( 35%)
Viruses 17451 ( 3%)
Within Eukaryota:
Category sequences (% of Eukaryota) (% of the complete database)
Human 20418 ( 10%) ( 4%)
Other Mammalia 47475 ( 24%) ( 8%)
Other Vertebrata 19007 ( 10%) ( 3%)
Viridiplantae 41876 ( 21%) ( 7%)
Fungi 37406 ( 19%) ( 7%)
Insecta 10001 ( 5%) ( 2%)
Nematoda 5407 ( 3%) ( 1%)
Other 17396 ( 9%) ( 3%)
3. SEQUENCE SIZE
Repartition of the sequences by size (excluding fragments)
From To Number From To Number
1- 50 10026 1001-1100 4150
51- 100 43697 1101-1200 2917
101- 150 59947 1201-1300 2232
151- 200 59731 1301-1400 2093
201- 250 58658 1401-1500 1697
251- 300 52642 1501-1600 841
301- 350 53094 1601-1700 649
351- 400 46132 1701-1800 601
401- 450 37844 1801-1900 531
451- 500 30740 1901-2000 405
501- 550 22466 2001-2100 278
551- 600 15920 2101-2200 395
601- 650 13226 2201-2300 343
651- 700 9447 2301-2400 239
701- 750 7916 2401-2500 199
751- 800 5731 >2500 1497
801- 850 4907
851- 900 5333
901- 950 4137
951-1000 3021
The average sequence length in UniProtKB/Swiss-Prot is 362 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: 3198
4.1 Table of the frequency of journal citations
Journals cited 1x: 1010
2x: 429
3x: 225
4x: 150
5x: 127
6x: 90
7x: 64
8x: 79
9x: 51
10x: 44
11- 20x: 247
21- 50x: 274
51-100x: 142
>100x: 266
4.2 List of the most cited journals in UniProtKB/Swiss-Prot
Nb Citations Journal name
-- --------- -------------------------------------------------------------
1 27557 Journal of Biological Chemistry
2 12942 Proceedings of the National Academy of Sciences of the U.S.A.
3 7285 Journal of Bacteriology
4 6132 Biochemical and Biophysical Research Communications
5 5948 Biochemistry
6 5399 Nucleic Acids Research
7 5287 Nature
8 5129 FEBS Letters
9 5046 The EMBO Journal
10 4900 Gene
11 4643 Journal of Molecular Biology
12 4612 Molecular and Cellular Biology
13 4078 Biochimica et Biophysica Acta
14 3938 Cell
15 3664 Journal of Virology
16 3522 European Journal of Biochemistry
17 3447 Science
18 3212 Biochemical Journal
19 2912 Molecular Microbiology
20 2828 Plant Physiology
21 2718 PLoS ONE
22 2547 Genomics
23 2462 The American Journal of Human Genetics
24 2397 Journal of Cell Biology
25 2207 The Plant Cell
26 2054 Human Molecular Genetics
27 2045 The Plant Journal
28 1969 Genes and Development
29 1928 Plant Molecular Biology
30 1926 Virology
31 1910 Molecular Cell
32 1866 Nature Genetics
33 1852 Molecular Biology of the Cell
34 1835 Development
35 1726 Journal of Immunology
36 1674 Human Mutation
37 1576 Oncogene
38 1498 Structure
39 1485 Nature Communications
40 1439 Journal of Biochemistry
41 1439 Molecular and General Genetics
42 1433 Genetics
43 1416 Journal of Cell Science
44 1311 Blood
45 1286 Infection and Immunity
46 1202 Microbiology
47 1200 Developmental Biology
48 1195 Journal of General Virology
49 1169 Current Biology
50 1166 Archives of Biochemistry and Biophysics
51 1056 Journal of Neuroscience
52 1052 Applied and Environmental Microbiology
53 1003 Scientific Reports
54 1003 Acta Crystallographica, Section D
55 940 PLoS Genetics
56 938 FEMS Microbiology Letters
57 933 Cancer Research
58 900 American Journal of Physiology
59 893 Toxicon
60 880 Protein Science
61 870 Journal of Clinical Investigation
62 856 Yeast
63 845 Neuron
64 777 The Journal of Experimental Medicine
65 776 Plant and Cell Physiology
66 766 Human Genetics
67 731 Nature Structural and Molecular Biology
68 728 Journal of Medical Genetics
69 724 PLoS Pathogens
70 714 The FEBS Journal
71 705 Proteins
72 679 Mechanisms of Development
73 669 Nature Cell Biology
74 654 Nature Structural Biology
75 640 Bioscience, Biotechnology, and Biochemistry
76 632 Antimicrobial Agents and Chemotherapy
77 612 Developmental Cell
78 600 Current Genetics
79 579 Journal of Neurochemistry
80 558 Cell Reports
81 557 Molecular Endocrinology
82 555 The Journal of Clinical Endocrinology and Metabolism
83 544 Endocrinology
84 539 Journal of the American Chemical Society
85 531 Molecular and Biochemical Parasitology
86 503 Eukaryotic Cell
87 498 Experimental Cell Research
88 495 Mammalian Genome
89 487 RNA
90 485 EMBO Reports
91 480 Peptides
92 473 Journal of Experimental Botany
93 473 The FASEB Journal
94 468 American Journal of Medical Genetics. Part A
95 461 Planta
96 448
97 443 Molecular Pharmacology
98 442 Acta Crystallographica, Section F
99 434 Immunogenetics
100 433 European Journal of Human Genetics
101 426 Clinical Genetics
102 423 Molecular Biology and Evolution
103 421 Immunity
104 420 Molecular Plant-Microbe Interactions
105 419 Journal of Investigative Dermatology
106 407 Journal of Molecular Evolution
107 398 Neurology
108 398 DNA and Cell Biology
109 394 Biochimie
110 383 Biology of Reproduction
111 381 DNA Sequence
112 376 Comparative Biochemistry and Physiology
113 363 Virus Research
114 362 Genes to Cells
115 358 Nature Immunology
116 352 Applied Microbiology and Biotechnology
117 351 PLoS Biology
118 351 Journal of Lipid Research
119 346 Developmental Dynamics
120 345 The New England Journal of Medicine
121 343 Journal of Medicinal Chemistry
122 342 Brain Research. Molecular Brain Research
123 338 BMC Genomics
124 338 Annals of Neurology
125 323 European Journal of Immunology
126 319 Genome Research
127 308 Investigative Ophthalmology and Visual Science
128 306 Journal of Human Genetics
129 299 Biological Chemistry Hoppe-Seyler
130 291 Nature Chemical Biology
131 290 Glycobiology
132 288 Brain
133 284 Archives of Microbiology
134 283 Journal of General Microbiology
135 281 Cytogenetics and Cell Genetics
136 265 Traffic
137 264 Fungal Genetics and Biology
138 262 Molecular Genetics and Metabolism
139 262 Phytochemistry
140 261 Nature Medicine
141 259 Protein Expression and Purification
142 259 Molecular Immunology
143 250 Cell Research
144 250 Journal of Cellular Biochemistry
145 246 Cell Cycle
146 243 Circulation Research
147 237 Diabetes
148 234 DNA Research
149 233 Chemistry and Biology
150 232 Insect Biochemistry and Molecular Biology
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) 1323976 2.31
Journal 1152197 477850 2.01 1
Submitted to EMBL/GenBank/DDBJ 160199 144272 0.28 2
Submitted to other databases 7856 7175 0.01 3
Book citation 1876 1853 <0.01 4
Plant Gene Register 613 600 <0.01 5
Unpublished observations 537 533 <0.01 6
Thesis 478 475 <0.01 7
Patent 214 207 <0.01 8
Worm Breeder's Gazette 6 6 <0.01 9
Total number of distinct authors cited in UniProtKB/Swiss-Prot: 479488
Total Number of Average
Line type / subtype number entries per entry Rank
------------------------------------ -------- --------- --------- ----
Comments (CC) 2771146 4.84
ACTIVITY REGULATION 18760 18632 0.03 17
ALLERGEN 954 954 <0.01 26
ALTERNATIVE PRODUCTS 25960 25960 0.05 14
BIOPHYSICOCHEMICAL PROPERTIES 11986 11933 0.02 20
BIOTECHNOLOGY 2193 2132 <0.01 24
CATALYTIC ACTIVITY 347705 257171 0.61 4
CAUTION 14528 14224 0.03 19
COFACTOR 134232 121836 0.23 7
DEVELOPMENTAL STAGE 14620 14500 0.03 18
DISEASE 8562 5749 0.01 21
DISRUPTION PHENOTYPE 22143 22085 0.04 16
DOMAIN 61191 51910 0.11 9
FUNCTION 496208 470368 0.87 2
INDUCTION 26338 26230 0.05 13
INTERACTION 24981 24981 0.04 15
MASS SPECTROMETRY 7639 5914 0.01 22
MISCELLANEOUS 46535 40919 0.08 11
PATHWAY 144453 130437 0.25 6
PHARMACEUTICAL 171 164 <0.01 29
POLYMORPHISM 1512 1384 <0.01 25
PTM 66220 46872 0.12 8
RNA EDITING 638 638 <0.01 28
SEQUENCE CAUTION 45322 45252 0.08 12
SIMILARITY 521322 516955 0.91 1
SUBCELLULAR LOCATION 367480 358715 0.64 3
SUBUNIT 301253 295589 0.53 5
TISSUE SPECIFICITY 51805 51114 0.09 10
TOXIC DOSE 882 705 <0.01 27
WEB RESOURCE 5553 4977 0.01 23
Total number of comment topics: 29
Total Number of Average
Line type / subtype number entries per entry Rank
------------------------------------ -------- --------- --------- ----
Features (FT) 5486735 9.58
ACT_SITE 178396 106590 0.31 10
BINDING 1259695 220558 2.20 1
CARBOHYD 125454 31908 0.22 14
CHAIN 581414 565233 1.01 2
COILED 22647 15672 0.04 25
COMPBIAS 197003 81916 0.34 9
CONFLICT 139639 48655 0.24 12
CROSSLNK 25509 9139 0.04 24
DISULFID 137833 36703 0.24 13
DNA_BIND 12233 10954 0.02 31
DOMAIN 218474 133646 0.38 8
HELIX 355482 30534 0.62 5
INIT_MET 17611 17562 0.03 26
INTRAMEM 3129 1473 0.01 34
LIPID 13934 8915 0.02 28
MOD_RES 264153 74958 0.46 7
MOTIF 48446 31552 0.08 21
MUTAGEN 103015 20816 0.18 17
NON_CONS 2660 831 <0.01 35
NON_STD 360 285 <0.01 36
NON_TER 12607 9692 0.02 30
PEPTIDE 12725 8828 0.02 29
PROPEP 15518 13262 0.03 27
REGION 327205 151128 0.57 6
REPEAT 109820 15250 0.19 15
SIGNAL 44811 44810 0.08 22
SITE 67599 36449 0.12 19
STRAND 361000 28759 0.63 4
TOPO_DOM 153109 30823 0.27 11
TRANSIT 9628 9505 0.02 32
TRANSMEM 384180 80453 0.67 3
TURN 86005 24937 0.15 18
UNSURE 5764 901 0.01 33
VAR_SEQ 53353 22713 0.09 20
VARIANT 105483 17592 0.18 16
ZN_FING 30841 13183 0.05 23
Total number of feature keys: 36
Total Number of Average
Line type / subtype number entries per entry Rank Category
------------------------------------ -------- --------- --------- ---- -------------------------------------------
Cross-references (DR) 21292013 37.16
ABCD 3164 3164 0.01 122 Protocols and materials databases
AGR 69233 68526 0.12 42 Organism-specific databases
Allergome 2044 1314 <0.01 131 Protein family/group databases
AlphaFoldDB 548205 548205 0.96 10 3D structure databases
Antibodypedia 32335 32226 0.06 61 Protocols and materials databases
AntiFam 20 20 <0.01 163 Family and domain databases
ArachnoServer 1148 1138 <0.01 139 Organism-specific databases
Araport 16416 16320 0.03 92 Organism-specific databases
Bgee 61805 61805 0.11 44 Gene expression databases
BindingDB 6662 6662 0.01 108 Chemistry databases
BioCyc 48215 44164 0.08 53 Enzyme and pathway databases
BioGRID 62061 60085 0.11 43 Protein-protein interaction databases
BioGRID-ORCS 45062 44476 0.08 55 Miscellaneous databases
BioMuta 20288 20261 0.04 78 Genetic variation databases
BMRB 6912 6912 0.01 106 3D structure databases
BRENDA 20460 18647 0.04 73 Enzyme and pathway databases
CarbonylDB 1159 1159 <0.01 138 PTM databases
CAZy 9703 8735 0.02 98 Protein family/group databases
CCDS 49706 34804 0.09 51 Sequence databases
CDD 383993 301868 0.67 16 Family and domain databases
CGD 2108 2091 <0.01 129 Organism-specific databases
ChEMBL 9145 8955 0.02 99 Chemistry databases
ChiTaRS 29790 29745 0.05 63 Miscellaneous databases
CollecTF 137 137 <0.01 157 Gene expression databases
ComplexPortal 17291 8814 0.03 90 Protein-protein interaction databases
ConoServer 967 879 <0.01 141 Organism-specific databases
CORUM 5812 5812 0.01 109 Protein-protein interaction databases
CPTAC 3472 1929 0.01 117 Proteomic databases
CPTC 392 392 <0.01 150 Protocols and materials databases
CTD 76223 75353 0.13 40 Organism-specific databases
DEPOD 254 254 <0.01 156 PTM databases
dictyBase 4225 4111 0.01 114 Organism-specific databases
DIP 17566 17525 0.03 89 Protein-protein interaction databases
DisGeNET 17608 17410 0.03 88 Organism-specific databases
DisProt 1772 1766 <0.01 133 Family and domain databases
DMDM 16167 16166 0.03 94 Genetic variation databases
DNASU 48469 48390 0.08 52 Protocols and materials databases
DrugBank 31671 4788 0.06 62 Chemistry databases
DrugCentral 2982 2982 0.01 124 Chemistry databases
EchoBASE 4158 4158 0.01 115 Organism-specific databases
eggNOG 339967 334090 0.59 17 Phylogenomic databases
ELM 1814 1814 <0.01 132 Protein-protein interaction databases
EMBL 1008532 560041 1.76 3 Sequence databases
EMDB 105615 10122 0.18 35 3D structure databases
Ensembl 103361 49613 0.18 36 Genome annotation databases
EnsemblBacteria 55512 55334 0.10 48 Genome annotation databases
EnsemblFungi 23346 22897 0.04 69 Genome annotation databases
EnsemblMetazoa 21244 11881 0.04 72 Genome annotation databases
EnsemblPlants 44630 21973 0.08 57 Genome annotation databases
EnsemblProtists 5423 5167 0.01 111 Genome annotation databases
ESTHER 3022 3019 0.01 123 Protein family/group databases
euHCVdb 55 44 <0.01 161 Organism-specific databases
EvolutionaryTrace 22667 22667 0.04 70 Miscellaneous databases
ExpressionAtlas 51124 51124 0.09 49 Gene expression databases
FlyBase 3946 3837 0.01 116 Organism-specific databases
FunFam 557751 327114 0.97 9 Family and domain databases
Gene3D 798335 477154 1.39 6 Family and domain databases
GeneCards 20371 20241 0.04 75 Organism-specific databases
GeneID 297769 288157 0.52 23 Genome annotation databases
GeneReviews 1614 1610 <0.01 134 Organism-specific databases
GeneTree 56365 56355 0.10 47 Phylogenomic databases
GeneWiki 10351 10269 0.02 97 Miscellaneous databases
GenomeRNAi 22330 22329 0.04 71 Miscellaneous databases
GlyConnect 2372 2215 <0.01 126 PTM databases
GlyCosmos 28906 28906 0.05 65 PTM databases
GlyGen 28852 28852 0.05 66 PTM databases
GO 3369524 552114 5.88 1 Ontologies
Gramene 44630 21973 0.08 56 Genome annotation databases
GuidetoPHARMACOLOGY 2273 2273 <0.01 128 Chemistry databases
HAMAP 330989 328052 0.58 19 Family and domain databases
HGNC 20370 20242 0.04 76 Organism-specific databases
HOGENOM 427971 427971 0.75 15 Phylogenomic databases
HPA 19354 19215 0.03 82 Organism-specific databases
IDEAL 1101 1101 <0.01 140 Family and domain databases
IMGT_GENE-DB 267 267 <0.01 155 Protein family/group databases
InParanoid 164236 164236 0.29 26 Phylogenomic databases
IntAct 58434 58434 0.10 45 Protein-protein interaction databases
InterPro 2562647 554701 4.47 2 Family and domain databases
iPTMnet 56772 56772 0.10 46 PTM databases
JaponicusDB 43 43 <0.01 162 Organism-specific databases
jPOST 29046 29046 0.05 64 Proteomic databases
KEGG 511696 476211 0.89 12 Genome annotation databases
LegioList 765 763 <0.01 145 Organism-specific databases
Leproma 672 669 <0.01 146 Organism-specific databases
MaizeGDB 529 525 <0.01 148 Organism-specific databases
MalaCards 7231 7218 0.01 104 Organism-specific databases
MANE-Select 18547 18434 0.03 85 Genome annotation databases
MassIVE 19136 19136 0.03 83 Proteomic databases
MEROPS 14247 13828 0.02 95 Protein family/group databases
MetOSite 3456 3456 0.01 118 PTM databases
MGI 17141 17100 0.03 91 Organism-specific databases
MIM 23788 16345 0.04 68 Organism-specific databases
MINT 24107 24107 0.04 67 Protein-protein interaction databases
MoonDB 348 348 <0.01 154 Protein family/group databases
MoonProt 368 368 <0.01 152 Protein family/group databases
NCBIfam 302263 278885 0.53 22 Family and domain databases
neXtProt 20300 20299 0.04 77 Organism-specific databases
NIAGADS 69 69 <0.01 159 Organism-specific databases
OGP 373 373 <0.01 151 2D gel databases
OMA 120368 120368 0.21 32 Phylogenomic databases
OpenTargets 18565 18420 0.03 84 Organism-specific databases
Orphanet 8003 4387 0.01 102 Organism-specific databases
OrthoDB 269746 269746 0.47 24 Phylogenomic databases
PANTHER 962383 504583 1.68 4 Family and domain databases
PathwayCommons 19437 19437 0.03 81 Enzyme and pathway databases
PATRIC 93188 93188 0.16 38 Genome annotation databases
PaxDb 153915 153915 0.27 27 Proteomic databases
PCDDB 134 134 <0.01 158 3D structure databases
PDB 326458 36768 0.57 20 3D structure databases
PDBsum 326458 36768 0.57 21 3D structure databases
PeptideAtlas 39646 39646 0.07 60 Proteomic databases
PeroxiBase 793 772 <0.01 144 Protein family/group databases
Pfam 854786 543927 1.49 5 Family and domain databases
PharmGKB 18032 18013 0.03 87 Organism-specific databases
Pharos 20199 20199 0.04 79 Miscellaneous databases
PHI-base 2418 1904 <0.01 125 Miscellaneous databases
PhosphoSitePlus 42169 42169 0.07 59 PTM databases
PhylomeDB 115707 115707 0.20 33 Phylogenomic databases
PIR 125215 114879 0.22 31 Sequence databases
PIRSF 111101 109930 0.19 34 Family and domain databases
PlantReactome 1320 771 <0.01 136 Enzyme and pathway databases
PomBase 5129 5125 0.01 112 Organism-specific databases
PRIDE 637 637 <0.01 147 Proteomic databases
PRINTS 151240 129841 0.26 28 Family and domain databases
PRO 98643 98643 0.17 37 Miscellaneous databases
ProMEX 489 489 <0.01 149 Proteomic databases
PROSITE 494118 312121 0.86 14 Family and domain databases
Proteomes 507072 462530 0.88 13 Miscellaneous databases
ProteomicsDB 72760 45403 0.13 41 Proteomic databases
PseudoCAP 2053 2053 <0.01 130 Organism-specific databases
Pumba 18204 18204 0.03 86 Proteomic databases
Reactome 144792 38932 0.25 29 Enzyme and pathway databases
REBASE 798 394 <0.01 143 Protein family/group databases
RefSeq 600355 454600 1.05 8 Sequence databases
REPRODUCTION-2DPAGE 1260 1039 <0.01 137 2D gel databases
RGD 8142 8141 0.01 101 Organism-specific databases
RNAct 43114 43114 0.08 58 Miscellaneous databases
SABIO-RK 5761 5761 0.01 110 Enzyme and pathway databases
SASBDB 950 950 <0.01 142 3D structure databases
SFLD 20385 9111 0.04 74 Family and domain databases
SGD 6752 6747 0.01 107 Organism-specific databases
SignaLink 19952 19952 0.03 80 Enzyme and pathway databases
SIGNOR 7654 7654 0.01 103 Enzyme and pathway databases
SMART 206348 148849 0.36 25 Family and domain databases
SMR 522680 522680 0.91 11 3D structure databases
STRING 336487 336487 0.59 18 Protein-protein interaction databases
SUPFAM 650554 460836 1.14 7 Family and domain databases
SwissLipids 1478 1394 <0.01 135 Chemistry databases
SwissPalm 13369 13369 0.02 96 PTM databases
TAIR 16406 16320 0.03 93 Organism-specific databases
TCDB 8683 8588 0.02 100 Protein family/group databases
TopDownProteomics 3236 2957 0.01 121 Proteomic databases
TreeFam 46323 46300 0.08 54 Phylogenomic databases
TubercuList 2346 2310 <0.01 127 Organism-specific databases
UCSC 51004 46528 0.09 50 Genome annotation databases
UniLectin 366 366 <0.01 153 Protein family/group databases
UniPathway 140186 126528 0.24 30 Enzyme and pathway databases
VEuPathDB 86968 79733 0.15 39 Organism-specific databases
VGNC 3449 3446 0.01 119 Organism-specific databases
WBParaSite 56 54 <0.01 160 Genome annotation databases
WormBase 6973 5098 0.01 105 Organism-specific databases
Xenbase 4751 4751 0.01 113 Organism-specific databases
ZFIN 3282 3281 0.01 120 Organism-specific databases
Total number of cross-referenced databases: 163
6. AMINO ACID COMPOSITION
6.1 Composition in percent for the complete database
Ala (A) 8.25 Gln (Q) 3.93 Leu (L) 9.64 Ser (S) 6.65
Arg (R) 5.52 Glu (E) 6.71 Lys (K) 5.79 Thr (T) 5.36
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) 5.90 Pro (P) 4.74 Val (V) 6.85
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
4467 entries are encoded on a mitochondrion, and 4044 are encoded on a plasmid.
12200 entries are encoded on a plastid,
of which 22 are encoded on apicoplasts,
11634 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: 81392
