UniProtKB/Swiss-Prot protein knowledgebase release 2019_10 statistics
1. INTRODUCTION
Release 2019_10 of 13-Nov-19 of UniProtKB/Swiss-Prot contains 561356 sequence entries,
comprising 201858328 amino acids abstracted from 269319 references.
181 sequences have been added since release 2019_09, the sequence data of
30 existing entries has been updated and the annotations of
89827 entries have been revised.
Number of fragments: 9203
Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 40210
Protein existence (PE): entries %
1: Evidence at protein level 101928 18.2%
2: Evidence at transcript level 57282 10.2%
3: Inferred from homology 386905 68.9%
4: Predicted 13404 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: 13846
The first twenty species represent 121083 sequences: 21.6 % of the total
number of entries.
2.1 Table of the frequency of occurrence of species
Species represented 1x: 5699
2x: 1996
3x: 1076
4x: 702
5x: 518
6x: 410
7x: 305
8x: 253
9x: 229
10x: 145
11- 20x: 773
21- 50x: 465
51-100x: 222
>100x: 1053
2.2 Table of the most represented species
------ --------- --------------------------------------------
Number Frequency Species
------ --------- --------------------------------------------
1 20379 Homo sapiens (Human)
2 17025 Mus musculus (Mouse)
3 15911 Arabidopsis thaliana (Mouse-ear cress)
4 8080 Rattus norvegicus (Rat)
5 6721 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
6 6008 Bos taurus (Bovine)
7 5140 Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
8 4518 Escherichia coli (strain K12)
9 4188 Bacillus subtilis (strain 168)
10 4148 Dictyostelium discoideum (Slime mold)
11 4102 Caenorhabditis elegans
12 4067 Oryza sativa subsp. japonica (Rice)
13 3589 Drosophila melanogaster (Fruit fly)
14 3447 Xenopus laevis (African clawed frog)
15 3126 Danio rerio (Zebrafish) (Brachydanio rerio)
16 2291 Gallus gallus (Chicken)
17 2218 Pongo abelii (Sumatran orangutan) (Pongo pygmaeus abelii)
18 2187 Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
19 2040 Escherichia coli O157:H7
20 1898 Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)
21 1797 Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
22 1787 Methanocaldococcus jannaschii
23 1707 Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
24 1706 Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
25 1694 Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)
26 1685 Shigella flexneri
27 1432 Sus scrofa (Pig)
28 1347 Salmonella typhi
29 1339 Pseudomonas aeruginosa
30 1244 Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97)
31 1175 Macaca fascicularis (Crab-eating macaque) (Cynomolgus monkey)
32 1066 Synechocystis sp. (strain PCC 6803 / Kazusa)
33 1035 Archaeoglobus fulgidus
34 1025 Yersinia pestis
35 1011 Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)
36 977 Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
37 941 Staphylococcus aureus (strain Mu50 / ATCC 700699)
38 940 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)
48 889 Staphylococcus aureus (strain MSSA476)
49 888 Staphylococcus aureus (strain MRSA252)
50 883 Rhizobium meliloti (strain 1021) (Ensifer meliloti) (Sinorhizobium meliloti)
51 882 Salmonella choleraesuis (strain SC-B67)
52 879 Shigella sonnei (strain Ss046)
53 878 Candida glabrata
54 863 Yersinia pseudotuberculosis serotype I (strain IP32953)
55 856 Neurospora crassa
56 844 Oryza sativa subsp. indica (Rice)
57 841 Escherichia coli O9:H4 (strain HS)
58 834 Escherichia coli O139:H28 (strain E24377A / ETEC)
59 831 Zea mays (Maize)
60 829 Shigella boydii serotype 4 (strain Sb227)
61 827 Canis lupus familiaris (Dog) (Canis familiaris)
62 825 Escherichia coli (strain UTI89 / UPEC)
63 822 Shigella dysenteriae serotype 1 (strain Sd197)
64 821 Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100)
65 819 Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks)
66 803 Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672)
67 801 Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)
68 794 Staphylococcus aureus (strain NCTC 8325)
69 793 Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
70 791 Escherichia coli (strain SMS-3-5 / SECEC)
71 786 Aquifex aeolicus (strain VF5)
72 771 Escherichia coli (strain K12 / DH10B)
73 770 Escherichia coli O127:H6 (strain E2348/69 / EPEC)
74 770 Pasteurella multocida (strain Pm70)
75 765 Escherichia coli (strain K12 / MC4100 / BW2952)
76 765 Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC)
77 762 Escherichia coli (strain 55989 / EAEC)
78 761 Escherichia coli O8 (strain IAI1)
79 760 Staphylococcus epidermidis (strain ATCC 35984 / RP62A)
80 760 Shigella flexneri serotype 5b (strain 8401)
81 759 Staphylococcus epidermidis (strain ATCC 12228)
82 756 Escherichia coli O45:K1 (strain S88 / ExPEC)
83 756 Escherichia coli (strain SE11)
84 753 Escherichia coli O7:K1 (strain IAI39 / ExPEC)
85 751 Bacillus anthracis
86 748 Photorhabdus laumondii subsp. laumondii (strain DSM 15139 / CIP 105565 / TT01)
87 748 Escherichia coli O157:H7 (strain EC4115 / EHEC)
88 742 Bacillus halodurans
89 739 Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 8081)
90 733 Vibrio vulnificus (strain CMCP6)
91 731 Escherichia coli O81 (strain ED1a)
92 724 Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)
93 722 Salmonella enteritidis PT4 (strain P125109)
94 718 Vibrio vulnificus (strain YJ016)
95 716 Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7)
96 715 Yersinia pestis bv. Antiqua (strain Nepal516)
97 715 Enterobacter sp. (strain 638)
98 715 Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)
99 714 Salmonella paratyphi A (strain AKU_12601)
100 714 Escherichia coli O1:K1 / APEC
101 713 Salmonella newport (strain SL254)
102 713 Salmonella agona (strain SL483)
103 713 Yersinia pseudotuberculosis serotype O:1b (strain IP 31758)
104 712 Salmonella schwarzengrund (strain CVM19633)
105 711 Yersinia pestis bv. Antiqua (strain Antiqua)
106 710 Salmonella heidelberg (strain SL476)
107 702 Salmonella dublin (strain CT_02021853)
108 698 Shigella boydii serotype 18 (strain CDC 3083-94 / BS512)
109 698 Klebsiella pneumoniae (strain 342)
110 695 Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73)
111 693 Pan troglodytes (Chimpanzee)
112 692 Nostoc sp. (strain PCC 7120 / SAG 25.82 / UTEX 2576)
113 686 Mycoplasma pneumoniae (strain ATCC 29342 / M129)
114 684 Salmonella gallinarum (strain 287/91 / NCTC 13346)
115 680 Pseudomonas syringae pv. tomato (strain ATCC BAA-871 / DC3000)
116 678 Citrobacter koseri (strain ATCC BAA-895 / CDC 4225-83 / SGSC4696)
117 677 Staphylococcus aureus (strain USA300)
118 676 Escherichia coli
119 672 Serratia proteamaculans (strain 568)
120 669 Mycobacterium leprae (strain TN)
121 668 Bacillus cereus
122 667 Yersinia pestis (strain Pestoides F)
123 664 Yarrowia lipolytica (strain CLIB 122 / E 150) (Yeast) (Candida lipolytica)
124 664 Bradyrhizobium diazoefficiens
125 657 Sinorhizobium fredii (strain NBRC 101917 / NGR234)
126 653 Debaryomyces hansenii
127 650 Agrobacterium fabrum (strain C58 / ATCC 33970) (Agrobacterium tumefaciens
128 650 Shewanella oneidensis (strain MR-1)
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 Cronobacter sakazakii (strain ATCC BAA-894) (Enterobacter sakazakii)
134 622 Treponema pallidum (strain Nichols)
135 620 Methanothermobacter thermautotrophicus
136 615 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
140 603 Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)
141 603 Ralstonia solanacearum (strain GMI1000) (Pseudomonas solanacearum)
142 602 Photobacterium profundum (strain SS9)
143 602 Staphylococcus saprophyticus subsp. saprophyticus
144 601 Salmonella paratyphi C (strain RKS4594)
145 600 Yersinia pestis bv. Antiqua (strain Angola)
146 598 Pseudomonas aeruginosa (strain UCBPP-PA14)
147 595 Bacillus cereus (strain ATCC 10987 / NRS 248)
148 595 Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
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)
157 571 Caulobacter vibrioides (strain ATCC 19089 / CB15) (Caulobacter crescentus)
158 569 Bacillus thuringiensis subsp. konkukian (strain 97-27)
159 568 Helicobacter pylori (strain J99 / ATCC 700824) (Campylobacter pylori J99)
160 567 Pseudomonas syringae pv. syringae (strain B728a)
161 564 Bacillus licheniformis
162 562 Bacillus cereus (strain ZK / E33L)
163 562 Buchnera aphidicola subsp. Schizaphis graminum (strain Sg)
164 560 Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155)
165 559 Clostridium acetobutylicum
166 557 Xanthomonas axonopodis pv. citri (strain 306)
167 555 Pseudomonas fluorescens (strain Pf0-1)
168 554 Neisseria meningitidis serogroup A / serotype 4A (strain Z2491)
169 553 Oceanobacillus iheyensis
170 553 Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
171 550 Pseudomonas fluorescens (strain ATCC BAA-477 / NRRL B-23932 / Pf-5)
172 547 Pseudomonas savastanoi pv. phaseolicola (Pseudomonas syringae pv. phaseolicola
173 540 Lactococcus lactis subsp. lactis (strain IL1403) (Streptococcus lactis)
174 531 Erwinia tasmaniensis (strain DSM 17950 / CIP 109463 / Et1/99)
175 530 Corynebacterium glutamicum
176 529 Listeria monocytogenes serotype 4b (strain F2365)
177 529 Sodalis glossinidius (strain morsitans)
178 528 Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50)
179 524 Staphylococcus aureus (strain Newman)
180 522 Xylella fastidiosa (strain 9a5c)
181 520 Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)
182 517 Chromobacterium violaceum
183 516 Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251)
184 515 Xylella fastidiosa (strain Temecula1 / ATCC 700964)
185 515 Deinococcus radiodurans
186 514 Aspergillus oryzae (strain ATCC 42149 / RIB 40) (Yellow koji mold)
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 Geobacillus kaustophilus (strain HTA426)
192 510 Haemophilus ducreyi (strain 35000HP / ATCC 700724)
193 508 Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253)
194 507 Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp)
195 502 Pseudomonas entomophila (strain L48)
196 501 Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
197 499 Brucella abortus biovar 1 (strain 9-941)
198 498 Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1)
199 497 Haemophilus influenzae (strain 86-028NP)
200 496 Rickettsia conorii (strain ATCC VR-613 / Malish 7)
201 496 Burkholderia pseudomallei (strain K96243)
202 496 Bacillus clausii (strain KSM-K16)
203 494 Proteus mirabilis (strain HI4320)
204 493 Xanthomonas campestris pv. campestris (strain 8004)
205 492 Bacillus velezensis (strain DSM 23117 / BGSC 10A6 / FZB42)
206 491 Vibrio campbellii (strain ATCC BAA-1116 / BB120)
207 491 Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1)
208 489 Pyrococcus horikoshii
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 Shewanella sp. (strain MR-4)
215 484 Pseudomonas aeruginosa (strain LESB58)
216 484 Staphylococcus aureus (strain Mu3 / ATCC 700698)
217 483 Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195)
218 482 Saccharolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
219 482 Streptococcus pneumoniae (strain ATCC BAA-255 / R6)
220 480 Synechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)
221 480 Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)
222 478 Pseudomonas putida (strain ATCC 700007 / DSM 6899 / BCRC 17059 / F1)
223 477 Pyrococcus abyssi (strain GE5 / Orsay)
224 477 Nicotiana tabacum (Common tobacco)
225 475 Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337)
226 474 Burkholderia lata
227 474 Solanum lycopersicum (Tomato) (Lycopersicon esculentum)
228 472 Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)
229 469 Rhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)
230 468 Clostridium perfringens (strain 13 / Type A)
231 468 Pseudomonas putida (strain GB-1)
232 467 Shewanella frigidimarina (strain NCIMB 400)
233 467 Campylobacter jejuni subsp. jejuni serotype O:2
234 466 Xanthomonas campestris pv. vesicatoria (strain 85-10)
235 466 Shewanella sp. (strain ANA-3)
236 466 Aeromonas hydrophila subsp. hydrophila
237 466 Enterococcus faecalis (strain ATCC 700802 / V583)
238 465 Trichormus variabilis (strain ATCC 29413 / PCC 7937) (Anabaena variabilis)
239 463 Burkholderia mallei (strain ATCC 23344)
240 459 Cupriavidus pinatubonensis (strain JMP 134 / LMG 1197) (Cupriavidus necator
241 458 Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath)
242 458 Ovis aries (Sheep)
243 457 Rickettsia felis (strain ATCC VR-1525 / URRWXCal2) (Rickettsia azadi)
244 455 Xanthomonas oryzae pv. oryzae (strain MAFF 311018)
245 455 Staphylococcus aureus (strain JH1)
246 455 Shewanella baltica (strain OS185)
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 19577 ( 3%)
Bacteria 334328 ( 60%)
Eukaryota 190466 ( 34%)
Viruses 16985 ( 3%)
Within Eukaryota:
Category sequences (% of Eukaryota) (% of the complete database)
Human 20380 ( 11%) ( 4%)
Other Mammalia 46817 ( 25%) ( 8%)
Other Vertebrata 18419 ( 10%) ( 3%)
Viridiplantae 40171 ( 21%) ( 7%)
Fungi 34181 ( 18%) ( 6%)
Insecta 9343 ( 5%) ( 2%)
Nematoda 5012 ( 3%) ( 1%)
Other 16143 ( 8%) ( 3%)
3. SEQUENCE SIZE
Repartition of the sequences by size (excluding fragments)
From To Number From To Number
1- 50 9674 1001-1100 4021
51- 100 42746 1101-1200 2815
101- 150 59293 1201-1300 2151
151- 200 59057 1301-1400 2016
201- 250 57916 1401-1500 1629
251- 300 51663 1501-1600 801
301- 350 52017 1601-1700 619
351- 400 45105 1701-1800 565
401- 450 37127 1801-1900 481
451- 500 29962 1901-2000 379
501- 550 21673 2001-2100 251
551- 600 15441 2101-2200 345
601- 650 12879 2201-2300 321
651- 700 9251 2301-2400 215
701- 750 7683 2401-2500 167
751- 800 5559 >2500 1322
801- 850 4796
851- 900 5216
901- 950 4056
951-1000 2941
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: 2837
4.1 Table of the frequency of journal citations
Journals cited 1x: 904
2x: 403
3x: 170
4x: 133
5x: 109
6x: 92
7x: 78
8x: 64
9x: 36
10x: 31
11- 20x: 226
21- 50x: 233
51-100x: 123
>100x: 235
4.2 List of the most cited journals in UniProtKB/Swiss-Prot
Nb Citations Journal name
-- --------- -------------------------------------------------------------
1 24982 Journal of Biological Chemistry
2 11643 Proceedings of the National Academy of Sciences of the U.S.A.
3 6687 Journal of Bacteriology
4 5695 Biochemical and Biophysical Research Communications
5 5406 Biochemistry
6 5032 Nucleic Acids Research
7 4862 FEBS Letters
8 4823 Gene
9 4719 The EMBO Journal
10 4634 Nature
11 4384 Molecular and Cellular Biology
12 4309 Journal of Molecular Biology
13 3700 Biochimica et Biophysica Acta
14 3610 Cell
15 3412 European Journal of Biochemistry
16 3298 Journal of Virology
17 3062 Science
18 2892 Biochemical Journal
19 2604 Plant Physiology
20 2582 Molecular Microbiology
21 2537 Genomics
22 2217 Journal of Cell Biology
23 2204 The American Journal of Human Genetics
24 2037 The Plant Cell
25 2018 PLoS ONE
26 1885 The Plant Journal
27 1874 Plant Molecular Biology
28 1853 Human Molecular Genetics
29 1848 Genes and Development
30 1813 Virology
31 1773 Nature Genetics
32 1692 Molecular Biology of the Cell
33 1685 Development
34 1581 Human Mutation
35 1573 Molecular Cell
36 1543 Oncogene
37 1503 Journal of Immunology
38 1395 Molecular and General Genetics
39 1370 Structure
40 1350 Journal of Biochemistry
41 1326 Genetics
42 1284 Journal of Cell Science
43 1175 Blood
44 1149 Journal of General Virology
45 1144 Infection and Immunity
46 1078 Microbiology
47 1067 Current Biology
48 1062 Archives of Biochemistry and Biophysics
49 1059 Developmental Biology
50 928 Applied and Environmental Microbiology
51 927 Journal of Neuroscience
52 899 Acta Crystallographica, Section D
53 888 Cancer Research
54 845 FEMS Microbiology Letters
55 839 Yeast
56 791 Toxicon
57 788 Protein Science
58 768 Neuron
59 751 Journal of Clinical Investigation
60 702 Plant and Cell Physiology
61 702 Human Genetics
62 697 American Journal of Physiology
63 686 PLoS Genetics
64 662 The Journal of Experimental Medicine
65 649 Mechanisms of Development
66 646 Nature Structural Biology
67 635 Proteins
68 626 Journal of Medical Genetics
69 584 Nature Cell Biology
70 574 Current Genetics
71 556 Bioscience, Biotechnology, and Biochemistry
72 552 Nature Structural and Molecular Biology
73 542 Journal of Neurochemistry
74 539 Molecular Endocrinology
75 534 The FEBS Journal
76 526 Nature Communications
77 523 Developmental Cell
78 521 The Journal of Clinical Endocrinology and Metabolism
79 506 Endocrinology
80 488 Mammalian Genome
81 482 Antimicrobial Agents and Chemotherapy
82 464 Experimental Cell Research
83 450 Molecular and Biochemical Parasitology
84 440 Immunogenetics
85 440 Scientific Reports
86 433 Eukaryotic Cell
87 433 Planta
88 421 RNA
89 417 Peptides
90 411 PLoS Pathogens
91 407 Journal of Molecular Evolution
92 399 Molecular Biology and Evolution
93 394 Journal of Experimental Botany
94 394 Journal of the American Chemical Society
95 388 DNA and Cell Biology
96 382 Molecular Pharmacology
97 375 DNA Sequence
98 373 EMBO Reports
99 372 The FASEB Journal
100 370 Neurology
101 369 Acta Crystallographica, Section F
102 369 American Journal of Medical Genetics. Part A
103 369 Journal of Investigative Dermatology
104 362 Molecular Plant-Microbe Interactions
105 356 European Journal of Human Genetics
106 351 Comparative Biochemistry and Physiology
107 351 Biology of Reproduction
108 343 Immunity
109 340 Brain Research. Molecular Brain Research
110 328 Virus Research
111 327 Genes to Cells
112 323 Biochimie
113 321 The New England Journal of Medicine
114 318 Developmental Dynamics
115 314 Clinical Genetics
116 301 Annals of Neurology
117 299 Genome Research
118 297 Biological Chemistry Hoppe-Seyler
119 287 European Journal of Immunology
120 283 BMC Genomics
121 282 Cytogenetics and Cell Genetics
122 281 Nature Immunology
123 274 Investigative Ophthalmology and Visual Science
124 271 Journal of General Microbiology
125 267 Applied Microbiology and Biotechnology
126 266 Journal of Lipid Research
127 266 Journal of Human Genetics
128 261 Journal of Medicinal Chemistry
129 261 PLoS Biology
130 248 Archives of Microbiology
131 245 Cell Reports
132 241 Tissue Antigens
133 240 Glycobiology
134 235 Journal of Cellular Biochemistry
135 234 Molecular Immunology
136 233 Traffic
137 232 DNA Research
138 227 Molecular Genetics and Metabolism
139 222 Cell Cycle
140 219 Diabetes
141 218 Hoppe-Seyler's Zeitschrift fur Physiologische Chemie
142 217 Circulation Research
143 213 Archives of Virology
144 212 Phytochemistry
145 210 Protein Expression and Purification
146 210 Nature Medicine
147 208 Molecular and Cellular Endocrinology
148 206 Fungal Genetics and Biology
149 197 Molecular Genetics and Genomics
150 190 Molecular and Cellular Neuroscience
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) 1234361 2.20
Journal 1057943 458548 1.88 1
Submitted to EMBL/GenBank/DDBJ 165441 149802 0.29 2
Submitted to other databases 7454 6876 0.01 3
Book citation 1830 1807 <0.01 4
Plant Gene Register 612 599 <0.01 5
Thesis 434 431 <0.01 6
Unpublished observations 431 427 <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: 418439
Total Number of Average
Line type / subtype number entries per entry Rank
------------------------------------ -------- --------- --------- ----
Comments (CC) 2569060 4.58
ACTIVITY REGULATION 15367 15365 0.03 16
ALLERGEN 872 872 <0.01 26
ALTERNATIVE PRODUCTS 25352 25352 0.05 13
BIOPHYSICOCHEMICAL PROPERTIES 8756 8756 0.02 20
BIOTECHNOLOGY 1069 1053 <0.01 25
CATALYTIC ACTIVITY 294640 240368 0.52 4
CAUTION 13239 12973 0.02 18
COFACTOR 126426 115058 0.23 7
DEVELOPMENTAL STAGE 12461 12460 0.02 19
DISEASE 7267 4886 0.01 21
DISRUPTION PHENOTYPE 15321 15318 0.03 17
DOMAIN 50415 43225 0.09 9
FUNCTION 470187 449073 0.84 2
INDUCTION 21874 21861 0.04 14
INTERACTION 19601 19601 0.03 15
MASS SPECTROMETRY 6869 5280 0.01 23
MISCELLANEOUS 39081 35892 0.07 12
PATHWAY 139388 126304 0.25 6
PHARMACEUTICAL 119 115 <0.01 29
POLYMORPHISM 1285 1229 <0.01 24
PTM 58154 42557 0.10 8
RNA EDITING 627 627 <0.01 28
SEQUENCE CAUTION 44243 44243 0.08 11
SIMILARITY 510172 505996 0.91 1
SUBCELLULAR LOCATION 351415 343835 0.63 3
SUBUNIT 280468 279537 0.50 5
TISSUE SPECIFICITY 46792 46791 0.08 10
TOXIC DOSE 675 616 <0.01 27
WEB RESOURCE 6925 5756 0.01 22
Total number of comment topics: 29
Total Number of Average
Line type / subtype number entries per entry Rank
------------------------------------ -------- --------- --------- ----
Features (FT) 4574938 8.15
ACT_SITE 165432 100150 0.29 10
BINDING 409431 108541 0.73 2
CA_BIND 4206 1743 0.01 36
CARBOHYD 117275 30143 0.21 15
CHAIN 569447 554212 1.01 1
COILED 22093 15292 0.04 27
COMPBIAS 59171 31833 0.11 21
CONFLICT 135943 47543 0.24 13
CROSSLNK 23713 8518 0.04 26
DISULFID 126796 34025 0.23 14
DNA_BIND 11879 10621 0.02 32
DOMAIN 200265 123008 0.36 9
HELIX 267767 24479 0.48 6
INIT_MET 17208 17208 0.03 28
INTRAMEM 2791 1275 <0.01 37
LIPID 13166 8493 0.02 30
METAL 396185 96791 0.71 3
MOD_RES 252910 72253 0.45 7
MOTIF 44245 28924 0.08 23
MUTAGEN 74507 16176 0.13 18
NON_CONS 2523 820 <0.01 38
NON_STD 357 282 <0.01 39
NON_TER 12517 9592 0.02 31
NP_BIND 158539 86087 0.28 11
PEPTIDE 11685 8053 0.02 33
PROPEP 14366 12257 0.03 29
REGION 201923 94920 0.36 8
REPEAT 106010 14829 0.19 16
SIGNAL 42482 42481 0.08 24
SITE 59599 32387 0.11 20
STRAND 277818 23070 0.49 5
TOPO_DOM 141254 28904 0.25 12
TRANSIT 9176 9060 0.02 34
TRANSMEM 372540 77773 0.66 4
TURN 64538 19900 0.11 19
UNSURE 5577 839 0.01 35
VAR_SEQ 52202 22126 0.09 22
VARIANT 97398 17112 0.17 17
ZN_FING 30004 12788 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) 18585938 33.11
ABCD 1612 1612 <0.01 121 Protocols and materials databases
Allergome 1930 1255 <0.01 119 Protein family/group databases
ArachnoServer 1163 1154 <0.01 129 Organism-specific databases
Araport 15931 15835 0.03 81 Organism-specific databases
Bgee 56745 56744 0.10 41 Gene expression databases
BindingDB 5194 5194 0.01 98 Chemistry
BioCyc 270128 244541 0.48 22 Enzyme and pathway databases
BioGrid 54527 52838 0.10 45 Protein-protein interaction databases
BioMuta 20329 20314 0.04 67 Polymorphism and mutation databases
BRENDA 12957 12174 0.02 84 Enzyme and pathway databases
CarbonylDB 1157 1157 <0.01 130 PTM databases
CAZy 9506 8569 0.02 87 Protein family/group databases
CCDS 48318 34258 0.09 49 Sequence databases
CDD 184351 167287 0.33 28 Family and domain databases
CGD 1999 1982 <0.01 118 Organism-specific databases
ChEMBL 7279 7158 0.01 93 Chemistry
ChiTaRS 29624 29587 0.05 54 Other
CollecTF 135 135 <0.01 152 Gene expression databases
ComplexPortal 9223 4894 0.02 88 Protein-protein interaction databases
COMPLUYEAST-2DPAGE 97 97 <0.01 153 2D gel databases
ConoServer 952 869 <0.01 131 Organism-specific databases
CORUM 5805 5805 0.01 97 Protein-protein interaction databases
CPTAC 2221 1423 <0.01 114 Proteomic databases
CTD 75261 74363 0.13 40 Organism-specific databases
DEPOD 239 239 <0.01 150 PTM databases
dictyBase 4213 4099 0.01 106 Organism-specific databases
DIP 17403 17371 0.03 77 Protein-protein interaction databases
DisGeNET 15661 15430 0.03 82 Organism-specific databases
DisProt 1505 1492 <0.01 122 Family and domain databases
DMDM 16210 16208 0.03 80 Polymorphism and mutation databases
DNASU 19022 18956 0.03 72 Protocols and materials databases
DOSAC-COBS-2DPAGE 145 145 <0.01 151 2D gel databases
DrugBank 27239 4519 0.05 60 Chemistry
DrugCentral 2531 2531 <0.01 113 Chemistry
EchoBASE 4159 4159 0.01 107 Organism-specific databases
eggNOG 666358 332449 1.19 5 Phylogenomic databases
ELM 1811 1811 <0.01 120 Protein-protein interaction databases
EMBL 985772 549297 1.76 3 Sequence databases
Ensembl 91933 50583 0.16 39 Genome annotation databases
EnsemblBacteria 355967 336789 0.63 16 Genome annotation databases
EnsemblFungi 29544 27988 0.05 56 Genome annotation databases
EnsemblMetazoa 17709 10349 0.03 75 Genome annotation databases
EnsemblPlants 28058 21007 0.05 57 Genome annotation databases
EnsemblProtists 4921 4742 0.01 101 Genome annotation databases
EPD 22046 22046 0.04 64 Proteomic databases
ESTHER 2539 2538 <0.01 112 Protein family/group databases
euHCVdb 55 44 <0.01 155 Organism-specific databases
EuPathDB 19697 19685 0.04 71 Organism-specific databases
EvolutionaryTrace 16635 16635 0.03 79 Other
ExpressionAtlas 49481 49481 0.09 48 Gene expression databases
FlyBase 4894 4768 0.01 102 Organism-specific databases
Gene3D 402246 314325 0.72 14 Family and domain databases
GeneCards 20358 20185 0.04 66 Organism-specific databases
GeneDB 581 525 <0.01 139 Genome annotation databases
GeneID 290455 280801 0.52 20 Genome annotation databases
GeneReviews 1479 1475 <0.01 123 Organism-specific databases
GeneTree 56064 56014 0.10 42 Phylogenomic databases
Genevisible 55234 55234 0.10 43 Gene expression databases
GeneWiki 10351 10268 0.02 86 Other
GenomeRNAi 22145 22145 0.04 63 Other
GlyConnect 2201 2113 <0.01 116 PTM databases
GO 2986874 536002 5.32 1 Ontologies
Gramene 28058 21007 0.05 58 Genome annotation databases
GuidetoPHARMACOLOGY 2013 2013 <0.01 117 Chemistry
HAMAP 330174 327254 0.59 17 Family and domain databases
HGNC 20324 20185 0.04 68 Organism-specific databases
HOGENOM 392279 392279 0.70 15 Phylogenomic databases
HPA 27372 16807 0.05 59 Organism-specific databases
IMGT_GENE-DB 266 266 <0.01 149 Protein family/group databases
InParanoid 139870 139870 0.25 29 Phylogenomic databases
IntAct 54778 54778 0.10 44 Protein-protein interaction databases
InterPro 2291870 542555 4.08 2 Family and domain databases
iPTMnet 52601 52601 0.09 46 PTM databases
jPOST 26786 26786 0.05 61 Proteomic databases
KEGG 504761 475824 0.90 7 Genome annotation databases
KO 408044 407596 0.73 13 Phylogenomic databases
LegioList 765 763 <0.01 135 Organism-specific databases
Leproma 672 669 <0.01 136 Organism-specific databases
MaizeGDB 520 516 <0.01 141 Organism-specific databases
MalaCards 4604 4600 0.01 103 Organism-specific databases
MassIVE 17457 17457 0.03 76 Proteomic databases
MaxQB 29592 29592 0.05 55 Proteomic databases
MEROPS 11454 11452 0.02 85 Protein family/group databases
MGI 16935 16895 0.03 78 Organism-specific databases
MIM 21397 15186 0.04 65 Organism-specific databases
MINT 22777 22777 0.04 62 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 20277 20277 0.04 69 Organism-specific databases
NIAGADS 72 72 <0.01 154 Organism-specific databases
OGP 373 373 <0.01 144 2D gel databases
OMA 411708 411708 0.73 12 Phylogenomic databases
OpenTargets 18438 18284 0.03 73 Organism-specific databases
Orphanet 7605 4035 0.01 92 Organism-specific databases
OrthoDB 257236 257236 0.46 23 Phylogenomic databases
PANTHER 281890 270286 0.50 21 Family and domain databases
PATRIC 92167 92167 0.16 38 Genome annotation databases
PaxDb 124882 124882 0.22 33 Proteomic databases
PDB 185445 28235 0.33 27 3D structure databases
PDBsum 185445 28235 0.33 26 3D structure databases
PeptideAtlas 32505 32505 0.06 53 Proteomic databases
PeroxiBase 782 760 <0.01 134 Protein family/group databases
Pfam 780662 522278 1.39 4 Family and domain databases
PharmGKB 18318 18300 0.03 74 Organism-specific databases
Pharos 20124 20124 0.04 70 Other
PhosphoSitePlus 39014 39014 0.07 52 PTM databases
PhylomeDB 96447 96447 0.17 36 Phylogenomic databases
PIR 124219 113931 0.22 34 Sequence databases
PIRSF 109021 107992 0.19 35 Family and domain databases
PlantReactome 941 671 <0.01 132 Enzyme and pathway databases
PMAP-CutDB 1400 1400 <0.01 124 Other
PomBase 5132 5128 0.01 99 Organism-specific databases
PRIDE 234543 234543 0.42 24 Proteomic databases
PRINTS 130442 115737 0.23 31 Family and domain databases
PRO 95974 95974 0.17 37 Other
ProMEX 463 463 <0.01 143 Proteomic databases
PROSITE 473896 301525 0.84 10 Family and domain databases
Proteomes 484606 460306 0.86 9 Other
ProteomicsDB 40948 19836 0.07 51 Proteomic databases
PseudoCAP 1347 1338 <0.01 126 Organism-specific databases
Reactome 128917 36597 0.23 32 Enzyme and pathway databases
REBASE 618 378 <0.01 137 Protein family/group databases
RefSeq 611906 466051 1.09 6 Sequence databases
REPRODUCTION-2DPAGE 1259 1038 <0.01 127 2D gel databases
RGD 8004 8002 0.01 91 Organism-specific databases
SABIO-RK 4376 4376 0.01 104 Enzyme and pathway databases
SFLD 8106 6016 0.01 90 Family and domain databases
SGD 6740 6735 0.01 95 Organism-specific databases
SignaLink 3069 3069 0.01 111 Enzyme and pathway databases
SIGNOR 4278 4278 0.01 105 Enzyme and pathway databases
SMART 193114 142388 0.34 25 Family and domain databases
SMR 445691 445691 0.79 11 3D structure databases
STRING 328694 328694 0.59 18 Protein-protein interaction databases
SUPFAM 503162 381137 0.90 8 Family and domain databases
SWISS-2DPAGE 1177 1177 <0.01 128 2D gel databases
SwissLipids 1392 1305 <0.01 125 Chemistry
SwissPalm 8601 8601 0.02 89 PTM databases
TAIR 14715 14659 0.03 83 Organism-specific databases
TCDB 7229 7179 0.01 94 Protein family/group databases
TIGRFAMs 292602 272596 0.52 19 Family and domain databases
TopDownProteomics 3239 2962 0.01 109 Proteomic databases
TreeFam 45605 45595 0.08 50 Phylogenomic databases
TubercuList 2205 2169 <0.01 115 Organism-specific databases
UCD-2DPAGE 496 496 <0.01 142 2D gel databases
UCSC 50117 45768 0.09 47 Genome annotation databases
UniCarbKB 584 584 <0.01 138 PTM databases
UniLectin 275 275 <0.01 148 Protein family/group databases
UniPathway 137062 124116 0.24 30 Enzyme and pathway databases
VectorBase 581 502 <0.01 140 Genome annotation databases
VGNC 3971 3971 0.01 108 Organism-specific databases
WBParaSite 31 31 <0.01 156 Genome annotation databases
World-2DPAGE 931 920 <0.01 133 2D gel databases
WormBase 6224 4701 0.01 96 Organism-specific databases
Xenbase 5010 4979 0.01 100 Organism-specific databases
ZFIN 3104 3099 0.01 110 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: 79608