UniProtKB/Swiss-Prot protein knowledgebase release 2024_05 statistics
1. INTRODUCTION
Release 2024_05 of 02-Oct-2024 of UniProtKB/Swiss-Prot contains 572214 sequence
entries, curated from 301719 unique references and comprising 207235166 amino acids.
358 sequences have been added since release 2024_04, the sequence data of
35 existing entries has been updated and the annotations of
284879 entries have been revised.
Number of fragments: 9295
Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 41198
Protein existence (PE): entries %
1: Evidence at protein level 117011 20.4%
2: Evidence at transcript level 54419 9.5%
3: Inferred from homology 386046 67.5%
4: Predicted 12914 2.3%
5: Uncertain 1824 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: 14680
The first twenty species represent 123126 sequences: 21.5 % of the total
number of entries.
2.1 Table of the frequency of occurrence of species
Species represented 1x: 5985
2x: 2133
3x: 1147
4x: 778
5x: 543
6x: 445
7x: 324
8x: 281
9x: 243
10x: 158
11- 20x: 841
21- 50x: 513
51-100x: 232
>100x: 1057
2.2 Table of the most represented species
------ --------- --------------------------------------------
Number Frequency Species
------ --------- --------------------------------------------
1 20428 Homo sapiens (Human)
2 17221 Mus musculus (Mouse)
3 16389 Arabidopsis thaliana (Mouse-ear cress)
4 8205 Rattus norvegicus (Rat)
5 6727 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
6 6047 Bos taurus (Bovine)
7 5121 Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
8 4530 Escherichia coli (strain K12)
9 4487 Caenorhabditis elegans
10 4191 Bacillus subtilis (strain 168)
11 4190 Oryza sativa subsp. japonica (Rice)
12 4160 Dictyostelium discoideum (Social amoeba)
13 3796 Drosophila melanogaster (Fruit fly)
14 3507 Xenopus laevis (African clawed frog)
15 3343 Danio rerio (Zebrafish) (Brachydanio rerio)
16 2312 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 1828 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 1469 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 1144 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 1017 Emericella nidulans
37 997 Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
38 978 Oryctolagus cuniculus (Rabbit)
39 968 Neurospora crassa
40 942 Staphylococcus aureus (strain Mu50 / ATCC 700699)
41 930 Salmonella paratyphi A (strain ATCC 9150 / SARB42)
42 929 Aspergillus fumigatus (strain ATCC MYA-4609 / CBS 101355 / FGSC A1100 / Af293)
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 Rhizobium meliloti (strain 1021) (Ensifer meliloti) (Sinorhizobium meliloti)
52 888 Candida glabrata
53 888 Staphylococcus aureus (strain MRSA252)
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 Escherichia coli
65 822 Shigella dysenteriae serotype 1 (strain Sd197)
66 817 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)
90 736 Pseudomonas putida
91 733 Vibrio vulnificus (strain CMCP6)
92 731 Escherichia coli O81 (strain ED1a)
93 723 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 Escherichia coli O1:K1 / APEC
98 715 Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)
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 Citrobacter koseri (strain ATCC BAA-895 / CDC 4225-83 / SGSC4696)
118 679 Staphylococcus aureus (strain USA300)
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 Yarrowia lipolytica (strain CLIB 122 / E 150) (Yeast) (Candida lipolytica)
125 667 Yersinia pestis (strain Pestoides F)
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 Salmonella arizonae (strain ATCC BAA-731 / CDC346-86 / RSK2980)
131 642 Yersinia pseudotuberculosis serotype O:3 (strain YPIII)
132 634 Yersinia pseudotuberculosis serotype IB (strain PB1/+)
133 623 Methanothermobacter thermautotrophicus
134 622 Treponema pallidum (strain Nichols)
135 622 Cronobacter sakazakii (strain ATCC BAA-894) (Enterobacter sakazakii)
136 622 Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)
137 620 Pseudomonas aeruginosa (strain UCBPP-PA14)
138 615 Xanthomonas campestris pv. campestris
139 614 Staphylococcus haemolyticus (strain JCSC1435)
140 613 Mesorhizobium japonicum (Mesorhizobium loti
141 612 Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
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)
149 591 Pectobacterium carotovorum subsp. carotovorum (strain PC1)
150 590 Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)
151 588 Neisseria meningitidis serogroup B (strain ATCC BAA-335 / MC58)
152 584 Rickettsia prowazekii (strain Madrid E)
153 582 Caenorhabditis briggsae
154 579 Brucella suis biovar 1 (strain 1330)
155 577 Aspergillus oryzae (strain ATCC 42149 / RIB 40) (Yellow koji mold)
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)
163 565 Bacillus licheniformis
164 565 Thermotoga maritima
165 562 Bacillus cereus (strain ZK / E33L)
166 562 Buchnera aphidicola subsp. Schizaphis graminum (strain Sg)
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 Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)
185 519 Chromobacterium violaceum
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 Haemophilus ducreyi (strain 35000HP / ATCC 700724)
190 512 Pseudomonas aeruginosa (strain PA7)
191 512 Geobacillus kaustophilus (strain HTA426)
192 511 Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1)
193 511 Streptomyces avermitilis
194 508 Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253)
195 507 Streptococcus pneumoniae (strain ATCC BAA-255 / R6)
196 507 Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp)
197 506 Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
198 506 Solanum lycopersicum (Tomato) (Lycopersicon esculentum)
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 Pyrococcus horikoshii
206 497 Proteus mirabilis (strain HI4320)
207 497 Burkholderia pseudomallei (strain K96243)
208 496 Shouchella clausii (strain KSM-K16) (Alkalihalobacillus clausii)
209 496 Rickettsia conorii (strain ATCC VR-613 / Malish 7)
210 496 Synechococcus elongatus (strain ATCC 33912 / PCC 7942 / FACHB-805)
211 494 Xanthomonas campestris pv. campestris (strain 8004)
212 493 Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1)
213 492 Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
214 492 Bacillus velezensis (strain DSM 23117 / BGSC 10A6 / LMG 26770 / FZB42)
215 492 Brucella abortus (strain 2308)
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)
224 479 Pseudomonas putida
225 478 Pyrococcus abyssi (strain GE5 / Orsay)
226 477 Cupriavidus necator
227 475 Burkholderia lata
228 475 Campylobacter jejuni subsp. jejuni serotype O:2
229 472 Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)
230 470 Clostridium perfringens (strain 13 / Type A)
231 470 Enterococcus faecalis (strain ATCC 700802 / V583)
232 470 Cereibacter sphaeroides
233 468 Pseudomonas putida (strain GB-1)
234 468 Shewanella sp. (strain ANA-3)
235 467 Shewanella frigidimarina (strain NCIMB 400)
236 467 Aeromonas hydrophila subsp. hydrophila
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 Shewanella baltica (strain OS185)
246 455 Xanthomonas oryzae pv. oryzae (strain MAFF 311018)
247 453 Mycolicibacterium paratuberculosis (strain ATCC BAA-968 / K-10)
248 453 Streptococcus mutans serotype c (strain ATCC 700610 / UA159)
249 453 Pseudomonas putida (strain W619)
250 452 Aeromonas salmonicida (strain A449)
2.3 Taxonomic distribution of the sequences
Kingdom sequences (% of the database)
Archaea 19766 ( 3%)
Bacteria 336558 ( 59%)
Eukaryota 198462 ( 35%)
Viruses 17428 ( 3%)
Within Eukaryota:
Category sequences (% of Eukaryota) (% of the complete database)
Human 20429 ( 10%) ( 4%)
Other Mammalia 47462 ( 24%) ( 8%)
Other Vertebrata 18993 ( 10%) ( 3%)
Viridiplantae 41802 ( 21%) ( 7%)
Fungi 37181 ( 19%) ( 6%)
Insecta 9900 ( 5%) ( 2%)
Nematoda 5405 ( 3%) ( 1%)
Other 17290 ( 9%) ( 3%)
3. SEQUENCE SIZE
Repartition of the sequences by size (excluding fragments)
From To Number From To Number
1- 50 9981 1001-1100 4142
51- 100 43620 1101-1200 2909
101- 150 59919 1201-1300 2227
151- 200 59690 1301-1400 2086
201- 250 58605 1401-1500 1690
251- 300 52576 1501-1600 842
301- 350 53033 1601-1700 649
351- 400 46069 1701-1800 599
401- 450 37795 1801-1900 528
451- 500 30684 1901-2000 402
501- 550 22397 2001-2100 276
551- 600 15900 2101-2200 389
601- 650 13209 2201-2300 341
651- 700 9434 2301-2400 238
701- 750 7910 2401-2500 197
751- 800 5718 >2500 1477
801- 850 4902
851- 900 5332
901- 950 4133
951-1000 3020
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: 3172
4.1 Table of the frequency of journal citations
Journals cited 1x: 1002
2x: 425
3x: 224
4x: 147
5x: 130
6x: 89
7x: 62
8x: 76
9x: 52
10x: 40
11- 20x: 247
21- 50x: 272
51-100x: 144
>100x: 262
4.2 List of the most cited journals in UniProtKB/Swiss-Prot
Nb Citations Journal name
-- --------- -------------------------------------------------------------
1 27400 Journal of Biological Chemistry
2 12840 Proceedings of the National Academy of Sciences of the U.S.A.
3 7247 Journal of Bacteriology
4 6102 Biochemical and Biophysical Research Communications
5 5919 Biochemistry
6 5373 Nucleic Acids Research
7 5227 Nature
8 5117 FEBS Letters
9 5028 The EMBO Journal
10 4896 Gene
11 4623 Journal of Molecular Biology
12 4595 Molecular and Cellular Biology
13 4063 Biochimica et Biophysica Acta
14 3925 Cell
15 3648 Journal of Virology
16 3520 European Journal of Biochemistry
17 3421 Science
18 3198 Biochemical Journal
19 2893 Molecular Microbiology
20 2825 Plant Physiology
21 2680 PLoS ONE
22 2548 Genomics
23 2456 The American Journal of Human Genetics
24 2382 Journal of Cell Biology
25 2204 The Plant Cell
26 2044 Human Molecular Genetics
27 2042 The Plant Journal
28 1964 Genes and Development
29 1927 Plant Molecular Biology
30 1920 Virology
31 1887 Molecular Cell
32 1859 Nature Genetics
33 1846 Molecular Biology of the Cell
34 1834 Development
35 1719 Journal of Immunology
36 1668 Human Mutation
37 1571 Oncogene
38 1485 Structure
39 1436 Molecular and General Genetics
40 1431 Journal of Biochemistry
41 1427 Genetics
42 1406 Journal of Cell Science
43 1390 Nature Communications
44 1298 Blood
45 1283 Infection and Immunity
46 1194 Journal of General Virology
47 1193 Developmental Biology
48 1190 Microbiology
49 1163 Current Biology
50 1162 Archives of Biochemistry and Biophysics
51 1041 Applied and Environmental Microbiology
52 1041 Journal of Neuroscience
53 998 Acta Crystallographica, Section D
54 961 Scientific Reports
55 932 FEMS Microbiology Letters
56 931 PLoS Genetics
57 930 Cancer Research
58 897 American Journal of Physiology
59 891 Toxicon
60 876 Protein Science
61 868 Journal of Clinical Investigation
62 854 Yeast
63 841 Neuron
64 776 Plant and Cell Physiology
65 773 The Journal of Experimental Medicine
66 765 Human Genetics
67 722 Journal of Medical Genetics
68 709 PLoS Pathogens
69 704 The FEBS Journal
70 703 Nature Structural and Molecular Biology
71 700 Proteins
72 679 Mechanisms of Development
73 658 Nature Cell Biology
74 654 Nature Structural Biology
75 634 Bioscience, Biotechnology, and Biochemistry
76 603 Developmental Cell
77 600 Current Genetics
78 586 Antimicrobial Agents and Chemotherapy
79 576 Journal of Neurochemistry
80 556 Molecular Endocrinology
81 552 The Journal of Clinical Endocrinology and Metabolism
82 540 Endocrinology
83 532 Cell Reports
84 528 Journal of the American Chemical Society
85 524 Molecular and Biochemical Parasitology
86 497 Eukaryotic Cell
87 496 Mammalian Genome
88 494 Experimental Cell Research
89 483 RNA
90 477 Peptides
91 473 Journal of Experimental Botany
92 471 EMBO Reports
93 468 The FASEB Journal
94 465 American Journal of Medical Genetics. Part A
95 457 Planta
96 439 Molecular Pharmacology
97 434 Acta Crystallographica, Section F
98 434 Immunogenetics
99 428 European Journal of Human Genetics
100 423 Molecular Biology and Evolution
101 422 Clinical Genetics
102 418 Molecular Plant-Microbe Interactions
103 418 Immunity
104 410 Journal of Investigative Dermatology
105 407 Journal of Molecular Evolution
106 402
107 397 Neurology
108 396 DNA and Cell Biology
109 388 Biochimie
110 382 Biology of Reproduction
111 381 DNA Sequence
112 374 Comparative Biochemistry and Physiology
113 362 Virus Research
114 360 Genes to Cells
115 354 Nature Immunology
116 348 Journal of Lipid Research
117 345 Developmental Dynamics
118 343 Applied Microbiology and Biotechnology
119 343 PLoS Biology
120 342 The New England Journal of Medicine
121 342 Brain Research. Molecular Brain Research
122 337 Annals of Neurology
123 332 Journal of Medicinal Chemistry
124 331 BMC Genomics
125 322 European Journal of Immunology
126 317 Genome Research
127 308 Investigative Ophthalmology and Visual Science
128 304 Journal of Human Genetics
129 299 Biological Chemistry Hoppe-Seyler
130 288 Glycobiology
131 287 Nature Chemical Biology
132 284 Brain
133 283 Archives of Microbiology
134 282 Journal of General Microbiology
135 281 Cytogenetics and Cell Genetics
136 263 Traffic
137 262 Fungal Genetics and Biology
138 262 Phytochemistry
139 260 Molecular Genetics and Metabolism
140 260 Nature Medicine
141 259 Protein Expression and Purification
142 257 Molecular Immunology
143 250 Journal of Cellular Biochemistry
144 246 Cell Cycle
145 245 Cell Research
146 241 Circulation Research
147 235 Diabetes
148 234 DNA Research
149 229 New Phytologist
150 228 Archives of Virology
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) 1318304 2.30
Journal 1146526 476887 2.00 1
Submitted to EMBL/GenBank/DDBJ 160216 144313 0.28 2
Submitted to other databases 7840 7161 0.01 3
Book citation 1876 1853 <0.01 4
Plant Gene Register 613 600 <0.01 5
Unpublished observations 536 532 <0.01 6
Thesis 477 474 <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: 475259
Total Number of Average
Line type / subtype number entries per entry Rank
------------------------------------ -------- --------- --------- ----
Comments (CC) 2759105 4.82
ACTIVITY REGULATION 18351 18228 0.03 17
ALLERGEN 953 953 <0.01 26
ALTERNATIVE PRODUCTS 25944 25944 0.05 14
BIOPHYSICOCHEMICAL PROPERTIES 11793 11742 0.02 20
BIOTECHNOLOGY 2122 2061 <0.01 24
CATALYTIC ACTIVITY 345359 256255 0.60 4
CAUTION 14474 14174 0.03 19
COFACTOR 133882 121508 0.23 7
DEVELOPMENTAL STAGE 14536 14429 0.03 18
DISEASE 8507 5716 0.01 21
DISRUPTION PHENOTYPE 21651 21600 0.04 16
DOMAIN 60049 50909 0.10 9
FUNCTION 493838 469043 0.86 2
INDUCTION 26118 26015 0.05 13
INTERACTION 24904 24904 0.04 15
MASS SPECTROMETRY 7586 5864 0.01 22
MISCELLANEOUS 46417 40814 0.08 11
PATHWAY 144122 130113 0.25 6
PHARMACEUTICAL 171 164 <0.01 29
POLYMORPHISM 1508 1380 <0.01 25
PTM 65872 46649 0.12 8
RNA EDITING 637 637 <0.01 28
SEQUENCE CAUTION 45297 45226 0.08 12
SIMILARITY 520664 516298 0.91 1
SUBCELLULAR LOCATION 366601 357860 0.64 3
SUBUNIT 299741 294138 0.52 5
TISSUE SPECIFICITY 51514 50838 0.09 10
TOXIC DOSE 869 692 <0.01 27
WEB RESOURCE 5625 5039 0.01 23
Total number of comment topics: 29
Total Number of Average
Line type / subtype number entries per entry Rank
------------------------------------ -------- --------- --------- ----
Features (FT) 5429425 9.49
ACT_SITE 177127 105644 0.31 9
BINDING 1246618 219157 2.18 1
CARBOHYD 125006 31819 0.22 14
CHAIN 580721 564555 1.01 2
COILED 22622 15649 0.04 25
COMPBIAS 175526 74540 0.31 10
CONFLICT 139446 48600 0.24 12
CROSSLNK 25412 9109 0.04 24
DISULFID 136853 36534 0.24 13
DNA_BIND 12210 10932 0.02 31
DOMAIN 217715 133370 0.38 8
HELIX 351924 30319 0.62 5
INIT_MET 17606 17557 0.03 26
INTRAMEM 3158 1446 0.01 34
LIPID 13915 8918 0.02 28
MOD_RES 263666 74825 0.46 7
MOTIF 48327 31468 0.08 21
MUTAGEN 100792 20479 0.18 17
NON_CONS 2662 833 <0.01 35
NON_STD 358 283 <0.01 36
NON_TER 12618 9700 0.02 30
PEPTIDE 12637 8745 0.02 29
PROPEP 15459 13206 0.03 27
REGION 323645 150372 0.57 6
REPEAT 109583 15217 0.19 15
SIGNAL 44634 44633 0.08 22
SITE 65642 35556 0.11 19
STRAND 357784 28546 0.63 4
TOPO_DOM 152619 30747 0.27 11
TRANSIT 9614 9494 0.02 32
TRANSMEM 383420 80267 0.67 3
TURN 85117 24751 0.15 18
UNSURE 5758 898 0.01 33
VAR_SEQ 53334 22705 0.09 20
VARIANT 105059 17566 0.18 16
ZN_FING 30838 13169 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) 20479807 35.79
ABCD 3130 3130 0.01 121 Protocols and materials databases
AGR 69176 68489 0.12 41 Organism-specific databases
Allergome 2043 1313 <0.01 130 Protein family/group databases
AlphaFoldDB 547750 547750 0.96 9 3D structure databases
Antibodypedia 32317 32208 0.06 60 Protocols and materials databases
ArachnoServer 1148 1138 <0.01 138 Organism-specific databases
Araport 16409 16313 0.03 91 Organism-specific databases
Bgee 61751 61747 0.11 43 Gene expression databases
BindingDB 6662 6662 0.01 106 Chemistry databases
BioCyc 48166 44116 0.08 52 Enzyme and pathway databases
BioGRID 61786 59827 0.11 42 Protein-protein interaction databases
BioGRID-ORCS 45037 44452 0.08 54 Miscellaneous databases
BioMuta 20300 20274 0.04 77 Genetic variation databases
BMRB 6912 6912 0.01 104 3D structure databases
BRENDA 20425 18613 0.04 72 Enzyme and pathway databases
CarbonylDB 1159 1159 <0.01 137 PTM databases
CAZy 9690 8725 0.02 97 Protein family/group databases
CCDS 49696 34799 0.09 50 Sequence databases
CDD 383615 301565 0.67 15 Family and domain databases
CGD 2105 2088 <0.01 128 Organism-specific databases
ChEMBL 9141 8951 0.02 98 Chemistry databases
ChiTaRS 29782 29737 0.05 62 Miscellaneous databases
CollecTF 137 137 <0.01 156 Gene expression databases
ComplexPortal 17039 8685 0.03 90 Protein-protein interaction databases
ConoServer 967 879 <0.01 140 Organism-specific databases
CORUM 5812 5812 0.01 107 Protein-protein interaction databases
CPTAC 3472 1929 0.01 116 Proteomic databases
CPTC 392 392 <0.01 149 Protocols and materials databases
CTD 76199 75328 0.13 39 Organism-specific databases
DEPOD 254 254 <0.01 155 PTM databases
dictyBase 4225 4111 0.01 113 Organism-specific databases
DIP 17564 17523 0.03 88 Protein-protein interaction databases
DisGeNET 17610 17412 0.03 87 Organism-specific databases
DisProt 1771 1765 <0.01 132 Family and domain databases
DMDM 16168 16167 0.03 93 Genetic variation databases
DNASU 48439 48361 0.08 51 Protocols and materials databases
DrugBank 31669 4787 0.06 61 Chemistry databases
DrugCentral 2982 2982 0.01 123 Chemistry databases
EchoBASE 4158 4158 0.01 114 Organism-specific databases
eggNOG 339757 333889 0.59 16 Phylogenomic databases
ELM 1814 1814 <0.01 131 Protein-protein interaction databases
EMBL 1007425 559358 1.76 4 Sequence databases
EMDB 97670 9491 0.17 36 3D structure databases
Ensembl 116394 51222 0.20 32 Genome annotation databases
EnsemblBacteria 55490 55312 0.10 47 Genome annotation databases
EnsemblFungi 23280 22831 0.04 67 Genome annotation databases
EnsemblMetazoa 21071 11790 0.04 71 Genome annotation databases
EnsemblPlants 43809 22496 0.08 55 Genome annotation databases
EnsemblProtists 5411 5156 0.01 110 Genome annotation databases
ESTHER 3013 3010 0.01 122 Protein family/group databases
euHCVdb 55 44 <0.01 159 Organism-specific databases
EvolutionaryTrace 22643 22643 0.04 68 Miscellaneous databases
ExpressionAtlas 51094 51094 0.09 48 Gene expression databases
FlyBase 3926 3817 0.01 115 Organism-specific databases
Gene3D 740774 459788 1.29 6 Family and domain databases
GeneCards 20375 20245 0.04 73 Organism-specific databases
GeneID 295595 285827 0.52 22 Genome annotation databases
GeneReviews 1604 1600 <0.01 133 Organism-specific databases
GeneTree 56313 56301 0.10 46 Phylogenomic databases
GeneWiki 10351 10269 0.02 96 Miscellaneous databases
GenomeRNAi 22332 22332 0.04 69 Miscellaneous databases
GlyConnect 2372 2215 <0.01 125 PTM databases
GlyCosmos 28906 28906 0.05 63 PTM databases
GlyGen 22246 22246 0.04 70 PTM databases
GO 3180329 549763 5.56 1 Ontologies
Gramene 43809 22496 0.08 56 Genome annotation databases
GuidetoPHARMACOLOGY 2252 2252 <0.01 127 Chemistry databases
HAMAP 330948 328012 0.58 18 Family and domain databases
HGNC 20373 20245 0.04 74 Organism-specific databases
HOGENOM 427708 427708 0.75 14 Phylogenomic databases
HPA 19354 19215 0.03 81 Organism-specific databases
IDEAL 1101 1101 <0.01 139 Family and domain databases
IMGT_GENE-DB 267 267 <0.01 154 Protein family/group databases
InParanoid 164118 164118 0.29 25 Phylogenomic databases
IntAct 58224 58224 0.10 44 Protein-protein interaction databases
InterPro 2551716 553906 4.46 2 Family and domain databases
iPTMnet 56772 56772 0.10 45 PTM databases
JaponicusDB 43 43 <0.01 161 Organism-specific databases
jPOST 26414 26414 0.05 64 Proteomic databases
KEGG 507040 478065 0.89 12 Genome annotation databases
LegioList 765 763 <0.01 144 Organism-specific databases
Leproma 672 669 <0.01 145 Organism-specific databases
MaizeGDB 529 525 <0.01 147 Organism-specific databases
MalaCards 5693 5684 0.01 109 Organism-specific databases
MANE-Select 18524 18411 0.03 84 Genome annotation databases
MassIVE 19141 19141 0.03 82 Proteomic databases
MEROPS 14235 13816 0.02 94 Protein family/group databases
MetOSite 3455 3455 0.01 117 PTM databases
MGI 17133 17092 0.03 89 Organism-specific databases
MIM 23629 16236 0.04 66 Organism-specific databases
MINT 24091 24091 0.04 65 Protein-protein interaction databases
MoonDB 348 348 <0.01 153 Protein family/group databases
MoonProt 368 368 <0.01 151 Protein family/group databases
NCBIfam 301501 278358 0.53 21 Family and domain databases
neXtProt 20313 20313 0.04 76 Organism-specific databases
NIAGADS 69 69 <0.01 158 Organism-specific databases
OGP 373 373 <0.01 150 2D gel databases
OMA 120059 120059 0.21 31 Phylogenomic databases
OpenTargets 18557 18412 0.03 83 Organism-specific databases
Orphanet 7981 4372 0.01 101 Organism-specific databases
OrthoDB 275932 275932 0.48 23 Phylogenomic databases
PANTHER 1008586 504709 1.76 3 Family and domain databases
PathwayCommons 19446 19446 0.03 80 Enzyme and pathway databases
PATRIC 93101 93101 0.16 37 Genome annotation databases
PaxDb 153792 153792 0.27 26 Proteomic databases
PCDDB 134 134 <0.01 157 3D structure databases
PDB 315074 36132 0.55 20 3D structure databases
PDBsum 315074 36132 0.55 19 3D structure databases
PeptideAtlas 39650 39650 0.07 59 Proteomic databases
PeroxiBase 793 772 <0.01 143 Protein family/group databases
Pfam 853770 543320 1.49 5 Family and domain databases
PharmGKB 18032 18013 0.03 86 Organism-specific databases
Pharos 20213 20213 0.04 78 Miscellaneous databases
PHI-base 2411 1897 <0.01 124 Miscellaneous databases
PhosphoSitePlus 42169 42169 0.07 58 PTM databases
PhylomeDB 115656 115656 0.20 33 Phylogenomic databases
PIR 125188 114852 0.22 30 Sequence databases
PIRSF 111043 109874 0.19 34 Family and domain databases
PlantReactome 1320 771 <0.01 135 Enzyme and pathway databases
PomBase 5129 5125 0.01 111 Organism-specific databases
PRIDE 637 637 <0.01 146 Proteomic databases
PRINTS 151009 129671 0.26 27 Family and domain databases
PRO 98647 98647 0.17 35 Miscellaneous databases
ProMEX 489 489 <0.01 148 Proteomic databases
PROSITE 493358 311733 0.86 13 Family and domain databases
Proteomes 508430 463487 0.89 11 Miscellaneous databases
ProteomicsDB 72748 45396 0.13 40 Proteomic databases
PseudoCAP 2045 2045 <0.01 129 Organism-specific databases
Pumba 18207 18207 0.03 85 Proteomic databases
Reactome 145927 38862 0.26 28 Enzyme and pathway databases
REBASE 799 396 <0.01 142 Protein family/group databases
RefSeq 598093 452420 1.05 8 Sequence databases
REPRODUCTION-2DPAGE 1260 1039 <0.01 136 2D gel databases
RGD 8138 8137 0.01 100 Organism-specific databases
RNAct 43126 43126 0.08 57 Miscellaneous databases
SABIO-RK 5761 5761 0.01 108 Enzyme and pathway databases
SASBDB 913 913 <0.01 141 3D structure databases
SFLD 20351 9090 0.04 75 Family and domain databases
SGD 6746 6741 0.01 105 Organism-specific databases
SignaLink 19955 19955 0.03 79 Enzyme and pathway databases
SIGNOR 7649 7649 0.01 102 Enzyme and pathway databases
SMART 206039 148670 0.36 24 Family and domain databases
SMR 520328 520328 0.91 10 3D structure databases
STRING 336247 336247 0.59 17 Protein-protein interaction databases
SUPFAM 649405 460275 1.13 7 Family and domain databases
SwissLipids 1478 1394 <0.01 134 Chemistry databases
SwissPalm 13360 13360 0.02 95 PTM databases
TAIR 16399 16313 0.03 92 Organism-specific databases
TCDB 8601 8514 0.02 99 Protein family/group databases
TopDownProteomics 3236 2957 0.01 120 Proteomic databases
TreeFam 46302 46279 0.08 53 Phylogenomic databases
TubercuList 2333 2297 <0.01 126 Organism-specific databases
UCSC 50973 46502 0.09 49 Genome annotation databases
UniLectin 366 366 <0.01 152 Protein family/group databases
UniPathway 139989 126331 0.24 29 Enzyme and pathway databases
VEuPathDB 86759 79572 0.15 38 Organism-specific databases
VGNC 3453 3450 0.01 118 Organism-specific databases
WBParaSite 52 50 <0.01 160 Genome annotation databases
WormBase 6976 5091 0.01 103 Organism-specific databases
Xenbase 4751 4751 0.01 112 Organism-specific databases
ZFIN 3277 3276 0.01 119 Organism-specific databases
Total number of cross-referenced databases: 161
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) 5.80 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 4031 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: 81327
