UniProtKB/Swiss-Prot protein knowledgebase release 2018_03 statistics
1. INTRODUCTION
Release 2018_03 of 28-Mar-18 of UniProtKB/Swiss-Prot contains 557012 sequence entries,
comprising 199714119 amino acids abstracted from 258792 references.
199 sequences have been added since release 2018_02, the sequence data of
184 existing entries has been updated and the annotations of
146788 entries have been revised.
Number of fragments: 9152
Number of additional sequences produced by alternative splicing, initiation or promoter usage, or ribosomal frameshifting: 39832
Protein existence (PE): entries %
1: Evidence at protein level 98403 17.7%
2: Evidence at transcript level 57025 10.2%
3: Inferred from homology 386093 69.3%
4: Predicted 13627 2.4%
5: Uncertain 1864 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: 13602
The first twenty species represent 120143 sequences: 21.6 % of the total
number of entries.
2.1 Table of the frequency of occurrence of species
Species represented 1x: 5646
2x: 1938
3x: 1051
4x: 689
5x: 509
6x: 405
7x: 294
8x: 247
9x: 232
10x: 135
11- 20x: 740
21- 50x: 449
51-100x: 218
>100x: 1049
2.2 Table of the most represented species
------ --------- --------------------------------------------
Number Frequency Species
------ --------- --------------------------------------------
1 20316 Homo sapiens (Human)
2 16968 Mus musculus (Mouse)
3 15686 Arabidopsis thaliana (Mouse-ear cress)
4 8022 Rattus norvegicus (Rat)
5 6721 Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
6 6002 Bos taurus (Bovine)
7 5141 Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
8 4443 Escherichia coli (strain K12)
9 4185 Bacillus subtilis (strain 168)
10 4136 Dictyostelium discoideum (Slime mold)
11 4009 Caenorhabditis elegans
12 3923 Oryza sativa subsp. japonica (Rice)
13 3509 Drosophila melanogaster (Fruit fly)
14 3426 Xenopus laevis (African clawed frog)
15 3046 Danio rerio (Zebrafish) (Brachydanio rerio)
16 2290 Gallus gallus (Chicken)
17 2219 Pongo abelii (Sumatran orangutan) (Pongo pygmaeus abelii)
18 2168 Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
19 2035 Escherichia coli O157:H7
20 1898 Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh)
21 1795 Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720)
22 1787 Methanocaldococcus jannaschii
23 1707 Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
24 1705 Xenopus tropicalis (Western clawed frog) (Silurana tropicalis)
25 1694 Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)
26 1683 Shigella flexneri
27 1423 Sus scrofa (Pig)
28 1347 Salmonella typhi
29 1324 Pseudomonas aeruginosa
30 1244 Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97)
31 1172 Macaca fascicularis (Crab-eating macaque) (Cynomolgus monkey)
32 1063 Synechocystis sp. (strain PCC 6803 / Kazusa)
33 1031 Archaeoglobus fulgidus
34 1022 Yersinia pestis
35 1006 Candida albicans (strain SC5314 / ATCC MYA-2876) (Yeast)
36 975 Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
37 930 Salmonella paratyphi A (strain ATCC 9150 / SARB42)
38 930 Staphylococcus aureus (strain Mu50 / ATCC 700699)
39 927 Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056)
40 926 Staphylococcus aureus (strain N315)
41 914 Kluyveromyces lactis
42 909 Acanthamoeba polyphaga mimivirus (APMV)
43 899 Staphylococcus aureus (strain COL)
44 895 Staphylococcus aureus (strain MW2)
45 893 Oryctolagus cuniculus (Rabbit)
46 892 Escherichia coli O6:K15:H31 (strain 536 / UPEC)
47 889 Staphylococcus aureus (strain MSSA476)
48 888 Staphylococcus aureus (strain MRSA252)
49 887 Emericella nidulans
50 882 Salmonella choleraesuis (strain SC-B67)
51 881 Rhizobium meliloti (strain 1021) (Ensifer meliloti) (Sinorhizobium meliloti)
52 879 Shigella sonnei (strain Ss046)
53 871 Candida glabrata
54 863 Yersinia pseudotuberculosis serotype I (strain IP32953)
55 854 Neurospora crassa
56 841 Escherichia coli O9:H4 (strain HS)
57 834 Escherichia coli O139:H28 (strain E24377A / ETEC)
58 829 Shigella boydii serotype 4 (strain Sb227)
59 825 Escherichia coli (strain UTI89 / UPEC)
60 822 Shigella dysenteriae serotype 1 (strain Sd197)
61 819 Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks)
62 817 Canis lupus familiaris (Dog) (Canis familiaris)
63 816 Oryza sativa subsp. indica (Rice)
64 803 Zea mays (Maize)
65 796 Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672)
66 793 Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)
67 791 Escherichia coli (strain SMS-3-5 / SECEC)
68 784 Aquifex aeolicus (strain VF5)
69 776 Pasteurella multocida (strain Pm70)
70 774 Streptomyces coelicolor (strain ATCC BAA-471 / A3(2) / M145)
71 771 Escherichia coli O127:H6 (strain E2348/69 / EPEC)
72 771 Escherichia coli (strain K12 / DH10B)
73 770 Neosartorya fumigata (strain ATCC MYA-4609 / Af293 / CBS 101355 / FGSC A1100)
74 765 Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC)
75 765 Escherichia coli (strain K12 / MC4100 / BW2952)
76 762 Escherichia coli (strain 55989 / EAEC)
77 761 Escherichia coli O8 (strain IAI1)
78 760 Shigella flexneri serotype 5b (strain 8401)
79 760 Staphylococcus epidermidis (strain ATCC 35984 / RP62A)
80 759 Staphylococcus epidermidis (strain ATCC 12228)
81 758 Staphylococcus aureus (strain NCTC 8325)
82 756 Escherichia coli O45:K1 (strain S88 / ExPEC)
83 756 Escherichia coli (strain SE11)
84 753 Escherichia coli O7:K1 (strain IAI39 / ExPEC)
85 748 Escherichia coli O157:H7 (strain EC4115 / EHEC)
86 746 Photorhabdus luminescens subsp. laumondii (strain DSM 15139 / CIP 105565 / TT01)
87 741 Bacillus anthracis
88 741 Bacillus halodurans
89 737 Yersinia enterocolitica serotype O:8 / biotype 1B (strain NCTC 13174 / 8081)
90 733 Vibrio vulnificus (strain CMCP6)
91 731 Escherichia coli O81 (strain ED1a)
92 722 Salmonella enteritidis PT4 (strain P125109)
93 718 Vibrio vulnificus (strain YJ016)
94 718 Pseudomonas putida (strain ATCC 47054 / DSM 6125 / NCIMB 11950 / KT2440)
95 716 Salmonella paratyphi B (strain ATCC BAA-1250 / SPB7)
96 715 Enterobacter sp. (strain 638)
97 715 Klebsiella pneumoniae subsp. pneumoniae (strain ATCC 700721 / MGH 78578)
98 715 Yersinia pestis bv. Antiqua (strain Nepal516)
99 714 Escherichia coli O1:K1 / APEC
100 714 Salmonella paratyphi A (strain AKU_12601)
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)
113 687 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)
117 673 Escherichia coli
118 673 Staphylococcus aureus (strain USA300)
119 670 Serratia proteamaculans (strain 568)
120 669 Mycobacterium leprae (strain TN)
121 667 Yersinia pestis (strain Pestoides F)
122 665 Bacillus cereus
123 662 Bradyrhizobium diazoefficiens
124 658 Sinorhizobium fredii (strain NBRC 101917 / NGR234)
125 653 Debaryomyces hansenii
126 650 Yarrowia lipolytica (strain CLIB 122 / E 150) (Yeast) (Candida lipolytica)
127 646 Agrobacterium fabrum (strain C58 / ATCC 33970) (Agrobacterium tumefaciens
128 645 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)
131 638 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
136 613 Staphylococcus haemolyticus (strain JCSC1435)
137 610 Rhizobium loti (strain MAFF303099) (Mesorhizobium loti)
138 610 Xanthomonas campestris pv. campestris
139 607 Listeria monocytogenes serovar 1/2a (strain ATCC BAA-679 / EGD-e)
140 603 Ralstonia solanacearum (strain GMI1000) (Pseudomonas solanacearum)
141 603 Listeria innocua serovar 6a (strain ATCC BAA-680 / CLIP 11262)
142 602 Staphylococcus saprophyticus subsp. saprophyticus
143 602 Photobacterium profundum (strain SS9)
144 601 Salmonella paratyphi C (strain RKS4594)
145 600 Yersinia pestis bv. Antiqua (strain Angola)
146 594 Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
147 594 Bacillus cereus (strain ATCC 10987 / NRS 248)
148 593 Pseudomonas aeruginosa (strain UCBPP-PA14)
149 591 Pectobacterium carotovorum subsp. carotovorum (strain PC1)
150 586 Rickettsia prowazekii (strain Madrid E)
151 582 Neisseria meningitidis serogroup B (strain MC58)
152 579 Brucella suis biovar 1 (strain 1330)
153 578 Caenorhabditis briggsae
154 574 Brucella melitensis biotype 1 (strain 16M / ATCC 23456 / NCTC 10094)
155 573 Vibrio fischeri (strain ATCC 700601 / ES114)
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 Buchnera aphidicola subsp. Schizaphis graminum (strain Sg)
163 562 Bacillus cereus (strain ZK / E33L)
164 559 Clostridium acetobutylicum
165 557 Xanthomonas axonopodis pv. citri (strain 306)
166 555 Pseudomonas fluorescens (strain Pf0-1)
167 554 Neisseria meningitidis serogroup A / serotype 4A (strain Z2491)
168 554 Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155)
169 553 Oceanobacillus iheyensis
170 550 Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
171 549 Pseudomonas fluorescens (strain ATCC BAA-477 / NRRL B-23932 / Pf-5)
172 547 Pseudomonas savastanoi pv. phaseolicola (Pseudomonas syringae pv. phaseolicola
173 537 Lactococcus lactis subsp. lactis (strain IL1403) (Streptococcus lactis)
174 531 Erwinia tasmaniensis (strain DSM 17950 / CIP 109463 / Et1/99)
175 529 Listeria monocytogenes serotype 4b (strain F2365)
176 529 Sodalis glossinidius (strain morsitans)
177 528 Corynebacterium glutamicum
178 527 Bordetella bronchiseptica (strain ATCC BAA-588 / NCTC 13252 / RB50)
179 522 Xylella fastidiosa (strain 9a5c)
180 520 Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395)
181 517 Chromobacterium violaceum
182 516 Bordetella pertussis (strain Tohama I / ATCC BAA-589 / NCTC 13251)
183 515 Xylella fastidiosa (strain Temecula1 / ATCC 700964)
184 513 Deinococcus radiodurans
185 513 Aspergillus oryzae (strain ATCC 42149 / RIB 40) (Yellow koji mold)
186 512 Pseudomonas aeruginosa (strain PA7)
187 511 Staphylococcus aureus (strain Newman)
188 510 Geobacillus kaustophilus (strain HTA426)
189 510 Haemophilus ducreyi (strain 35000HP / ATCC 700724)
190 508 Bordetella parapertussis (strain 12822 / ATCC BAA-587 / NCTC 13253)
191 508 Streptomyces avermitilis
192 507 Methanosarcina acetivorans (strain ATCC 35395 / DSM 2834 / JCM 12185 / C2A)
193 507 Buchnera aphidicola subsp. Baizongia pistaciae (strain Bp)
194 502 Pseudomonas entomophila (strain L48)
195 501 Streptococcus pneumoniae serotype 4 (strain ATCC BAA-334 / TIGR4)
196 499 Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
197 499 Brucella abortus biovar 1 (strain 9-941)
198 497 Haemophilus influenzae (strain 86-028NP)
199 497 Rickettsia conorii (strain ATCC VR-613 / Malish 7)
200 496 Bacillus clausii (strain KSM-K16)
201 496 Burkholderia pseudomallei (strain K96243)
202 494 Proteus mirabilis (strain HI4320)
203 493 Acinetobacter baylyi (strain ATCC 33305 / BD413 / ADP1)
204 493 Xanthomonas campestris pv. campestris (strain 8004)
205 492 Bacillus velezensis (strain DSM 23117 / BGSC 10A6 / FZB42)
206 491 Halobacterium salinarum (strain ATCC 700922 / JCM 11081 / NRC-1)
207 490 Vibrio campbellii (strain ATCC BAA-1116 / BB120)
208 487 Methanosarcina mazei
209 487 Shewanella sp. (strain MR-7)
210 486 Mannheimia succiniciproducens (strain MBEL55E)
211 485 Thermosynechococcus elongatus (strain BP-1)
212 485 Pyrococcus horikoshii
213 484 Staphylococcus aureus (strain Mu3 / ATCC 700698)
214 484 Shewanella sp. (strain MR-4)
215 484 Pseudomonas aeruginosa (strain LESB58)
216 483 Brucella abortus (strain 2308)
217 483 Mycoplasma genitalium (strain ATCC 33530 / G-37 / NCTC 10195)
218 480 Synechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)
219 479 Streptococcus pneumoniae (strain ATCC BAA-255 / R6)
220 478 Pseudomonas putida (strain ATCC 700007 / DSM 6899 / BCRC 17059 / F1)
221 477 Pyrococcus abyssi (strain GE5 / Orsay)
222 475 Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337)
223 475 Lactobacillus plantarum (strain ATCC BAA-793 / NCIMB 8826 / WCFS1)
224 474 Burkholderia lata
225 473 Nicotiana tabacum (Common tobacco)
226 472 Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)
227 472 Sulfolobus solfataricus (strain ATCC 35092 / DSM 1617 / JCM 11322 / P2)
228 468 Clostridium perfringens (strain 13 / Type A)
229 466 Shewanella sp. (strain ANA-3)
230 466 Shewanella frigidimarina (strain NCIMB 400)
231 466 Rhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)
232 466 Xanthomonas campestris pv. vesicatoria (strain 85-10)
233 466 Pseudomonas putida (strain GB-1)
234 465 Anabaena variabilis (strain ATCC 29413 / PCC 7937)
235 464 Aeromonas hydrophila subsp. hydrophila
236 463 Campylobacter jejuni subsp. jejuni serotype O:2
237 463 Enterococcus faecalis (strain ATCC 700802 / V583)
238 462 Burkholderia mallei (strain ATCC 23344)
239 459 Cupriavidus necator (strain JMP 134 / LMG 1197) (Ralstonia eutropha
240 458 Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath)
241 457 Rickettsia felis (strain ATCC VR-1525 / URRWXCal2) (Rickettsia azadi)
242 457 Ovis aries (Sheep)
243 455 Staphylococcus aureus (strain JH1)
244 454 Xanthomonas oryzae pv. oryzae (strain MAFF 311018)
245 453 Pseudomonas putida (strain W619)
246 452 Aeromonas salmonicida (strain A449)
247 452 Streptococcus mutans serotype c (strain ATCC 700610 / UA159)
248 452 Shewanella baltica (strain OS185)
249 450 Dechloromonas aromatica (strain RCB)
250 450 Mycobacterium paratuberculosis (strain ATCC BAA-968 / K-10)
2.3 Taxonomic distribution of the sequences
Kingdom sequences (% of the database)
Archaea 19494 ( 3%)
Bacteria 333480 ( 60%)
Eukaryota 187246 ( 34%)
Viruses 16792 ( 3%)
Within Eukaryota:
Category sequences (% of Eukaryota) (% of the complete database)
Human 20317 ( 11%) ( 4%)
Other Mammalia 46603 ( 25%) ( 8%)
Other Vertebrata 18239 ( 10%) ( 3%)
Viridiplantae 39411 ( 21%) ( 7%)
Fungi 33161 ( 18%) ( 6%)
Insecta 9140 ( 5%) ( 2%)
Nematoda 4909 ( 3%) ( 1%)
Other 15466 ( 8%) ( 3%)
3. SEQUENCE SIZE
Repartition of the sequences by size (excluding fragments)
From To Number From To Number
1- 50 9483 1001-1100 3974
51- 100 42419 1101-1200 2783
101- 150 58865 1201-1300 2130
151- 200 58789 1301-1400 1982
201- 250 57627 1401-1500 1598
251- 300 51307 1501-1600 781
301- 350 51689 1601-1700 611
351- 400 44854 1701-1800 541
401- 450 36858 1801-1900 465
451- 500 29677 1901-2000 376
501- 550 21374 2001-2100 245
551- 600 15271 2101-2200 320
601- 650 12742 2201-2300 311
651- 700 9192 2301-2400 207
701- 750 7626 2401-2500 155
751- 800 5498 >2500 1244
801- 850 4749
851- 900 5187
901- 950 4028
951-1000 2902
The average sequence length in UniProtKB/Swiss-Prot is 358 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: 2716
4.1 Table of the frequency of journal citations
Journals cited 1x: 857
2x: 381
3x: 171
4x: 133
5x: 108
6x: 94
7x: 66
8x: 48
9x: 46
10x: 30
11- 20x: 214
21- 50x: 223
51-100x: 118
>100x: 227
4.2 List of the most cited journals in UniProtKB/Swiss-Prot
Nb Citations Journal name
-- --------- -------------------------------------------------------------
1 24194 Journal of Biological Chemistry
2 11143 Proceedings of the National Academy of Sciences of the U.S.A.
3 6540 Journal of Bacteriology
4 5558 Biochemical and Biophysical Research Communications
5 5227 Biochemistry
6 4960 Nucleic Acids Research
7 4801 Gene
8 4788 FEBS Letters
9 4643 The EMBO Journal
10 4421 Nature
11 4306 Molecular and Cellular Biology
12 4198 Journal of Molecular Biology
13 3585 Biochimica et Biophysica Acta
14 3517 Cell
15 3381 European Journal of Biochemistry
16 3096 Journal of Virology
17 2954 Science
18 2817 Biochemical Journal
19 2532 Genomics
20 2498 Plant Physiology
21 2456 Molecular Microbiology
22 2160 Journal of Cell Biology
23 2087 The American Journal of Human Genetics
24 1934 The Plant Cell
25 1840 Plant Molecular Biology
26 1810 Genes and Development
27 1777 Human Molecular Genetics
28 1777 PLoS ONE
29 1775 The Plant Journal
30 1729 Virology
31 1726 Nature Genetics
32 1645 Development
33 1632 Molecular Biology of the Cell
34 1559 Human Mutation
35 1532 Oncogene
36 1492 Molecular Cell
37 1402 Journal of Immunology
38 1392 Molecular and General Genetics
39 1332 Journal of Biochemistry
40 1301 Structure
41 1300 Genetics
42 1219 Journal of Cell Science
43 1134 Blood
44 1109 Journal of General Virology
45 1100 Infection and Immunity
46 1043 Microbiology
47 1036 Current Biology
48 1034 Archives of Biochemistry and Biophysics
49 1020 Developmental Biology
50 877 Cancer Research
51 875 Journal of Neuroscience
52 872 Applied and Environmental Microbiology
53 857 Acta Crystallographica, Section D
54 832 Yeast
55 828 FEMS Microbiology Letters
56 761 Protein Science
57 756 Toxicon
58 733 Neuron
59 711 Journal of Clinical Investigation
60 680 Human Genetics
61 664 American Journal of Physiology
62 657 Plant and Cell Physiology
63 642 Nature Structural Biology
64 642 Mechanisms of Development
65 619 The Journal of Experimental Medicine
66 607 Proteins
67 590 PLoS Genetics
68 584 Journal of Medical Genetics
69 568 Current Genetics
70 559 Nature Cell Biology
71 536 Bioscience, Biotechnology, and Biochemistry
72 532 Molecular Endocrinology
73 527 Journal of Neurochemistry
74 514 The Journal of Clinical Endocrinology and Metabolism
75 509 Nature Structural and Molecular Biology
76 497 Endocrinology
77 494 Developmental Cell
78 488 Mammalian Genome
79 483 The FEBS Journal
80 472 Immunogenetics
81 449 Experimental Cell Research
82 447 Molecular and Biochemical Parasitology
83 433 Antimicrobial Agents and Chemotherapy
84 419 Eukaryotic Cell
85 416 Planta
86 409 Peptides
87 409 RNA
88 408 Journal of Molecular Evolution
89 396 Molecular Biology and Evolution
90 386 DNA and Cell Biology
91 373 DNA Sequence
92 369 Molecular Pharmacology
93 359 Journal of Experimental Botany
94 357 Journal of the American Chemical Society
95 355 Journal of Investigative Dermatology
96 354 Neurology
97 352 EMBO Reports
98 346 Comparative Biochemistry and Physiology
99 343 The FASEB Journal
100 340 Biology of Reproduction
101 340 Brain Research. Molecular Brain Research
102 335 Acta Crystallographica, Section F
103 332 Nature Communications
104 326 Tissue Antigens
105 322 European Journal of Human Genetics
106 320 Molecular Plant-Microbe Interactions
107 320 American Journal of Medical Genetics. Part A
108 319 Immunity
109 313 Biochimie
110 311 Genes to Cells
111 310 The New England Journal of Medicine
112 308 PLoS Pathogens
113 307 Developmental Dynamics
114 300 Virus Research
115 296 Biological Chemistry Hoppe-Seyler
116 294 Genome Research
117 284 Clinical Genetics
118 282 Cytogenetics and Cell Genetics
119 278 Annals of Neurology
120 270 Journal of General Microbiology
121 266 European Journal of Immunology
122 263 BMC Genomics
123 263 Investigative Ophthalmology and Visual Science
124 261 Nature Immunology
125 249 Journal of Human Genetics
126 247 Applied Microbiology and Biotechnology
127 243 Journal of Medicinal Chemistry
128 239 Scientific Reports
129 238 Archives of Microbiology
130 232 PLoS Biology
131 229 DNA Research
132 229 Glycobiology
133 227 Journal of Cellular Biochemistry
134 222 Traffic
135 218 Molecular Genetics and Metabolism
136 218 Hoppe-Seyler's Zeitschrift fur Physiologische Chemie
137 216 Cell Cycle
138 213 Journal of Lipid Research
139 212 Circulation Research
140 207 Archives of Virology
141 207 Diabetes
142 206 Molecular and Cellular Endocrinology
143 206 Molecular Immunology
144 202 Protein Expression and Purification
145 199 Phytochemistry
146 189 Molecular Genetics and Genomics
147 187 Nature Medicine
148 183 Molecular and Cellular Neuroscience
149 182 Insect Biochemistry and Molecular Biology
150 179 International Journal of Cancer
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) 1204461 2.16
Journal 1012113 452686 1.82 1
Submitted to EMBL/GenBank/DDBJ 181650 158820 0.33 2
Submitted to other databases 7348 6794 0.01 3
Book citation 1703 1680 <0.01 4
Plant Gene Register 611 598 <0.01 5
Thesis 434 431 <0.01 6
Unpublished observations 397 393 <0.01 7
Patent 199 195 <0.01 8
Worm Breeder's Gazette 6 6 <0.01 9
Total number of distinct authors cited in UniProtKB/Swiss-Prot: 399446
Total Number of Average
Line type / subtype number entries per entry Rank
------------------------------------ -------- --------- --------- ----
Comments (CC) 2494692 4.48
ALLERGEN 715 715 <0.01 26
ALTERNATIVE PRODUCTS 25139 25139 0.05 13
BIOPHYSICOCHEMICAL PROPERTIES 7917 7917 0.01 20
BIOTECHNOLOGY 854 843 <0.01 25
CATALYTIC ACTIVITY 265350 235054 0.48 5
CAUTION 12693 12451 0.02 18
COFACTOR 122396 112200 0.22 7
DEVELOPMENTAL STAGE 11839 11838 0.02 19
DISEASE 6817 4554 0.01 22
DISRUPTION PHENOTYPE 13194 13194 0.02 17
DOMAIN 47597 41039 0.09 9
ENZYME REGULATION 14289 14287 0.03 16
FUNCTION 461808 441717 0.83 2
INDUCTION 20113 20101 0.04 15
INTERACTION 20618 20618 0.04 14
MASS SPECTROMETRY 6675 5048 0.01 23
MISCELLANEOUS 38037 35171 0.07 12
PATHWAY 137536 124736 0.25 6
PHARMACEUTICAL 109 107 <0.01 29
POLYMORPHISM 1254 1198 <0.01 24
PTM 54980 40907 0.10 8
RNA EDITING 627 627 <0.01 28
SEQUENCE CAUTION 44022 44022 0.08 11
SIMILARITY 505306 501160 0.91 1
SUBCELLULAR LOCATION 346868 339667 0.62 3
SUBUNIT 275376 275046 0.49 4
TISSUE SPECIFICITY 44975 44974 0.08 10
TOXIC DOSE 662 608 <0.01 27
WEB RESOURCE 6926 5767 0.01 21
Total number of comment topics: 29
Total Number of Average
Line type / subtype number entries per entry Rank
------------------------------------ -------- --------- --------- ----
Features (FT) 4425964 7.95
ACT_SITE 162334 98350 0.29 10
BINDING 399292 105298 0.72 2
CA_BIND 4169 1728 0.01 36
CARBOHYD 116013 29650 0.21 15
CHAIN 564846 550070 1.01 1
COILED 21959 15191 0.04 27
COMPBIAS 58841 31638 0.11 20
CONFLICT 134644 47132 0.24 13
CROSSLNK 23383 8388 0.04 26
DISULFID 122570 33154 0.22 14
DNA_BIND 11587 10480 0.02 32
DOMAIN 192356 118613 0.35 9
HELIX 245054 22771 0.44 7
INIT_MET 17128 17128 0.03 28
INTRAMEM 2623 1179 <0.01 37
LIPID 12936 8355 0.02 30
METAL 375317 93398 0.67 3
MOD_RES 247744 71319 0.44 6
MOTIF 42115 27630 0.08 23
MUTAGEN 65995 14663 0.12 18
NON_CONS 2257 787 <0.01 38
NON_STD 358 283 <0.01 39
NON_TER 12348 9462 0.02 31
NP_BIND 155085 84474 0.28 11
PEPTIDE 11383 7839 0.02 33
PROPEP 14050 11989 0.03 29
REGION 193175 92189 0.35 8
REPEAT 104382 14700 0.19 16
SIGNAL 41304 41303 0.07 24
SITE 56137 31271 0.10 21
STRAND 255640 21438 0.46 5
TOPO_DOM 139374 28614 0.25 12
TRANSIT 9031 8915 0.02 34
TRANSMEM 368969 76953 0.66 4
TURN 58988 18455 0.11 19
UNSURE 4429 788 0.01 35
VAR_SEQ 51790 21909 0.09 22
VARIANT 95997 17032 0.17 17
ZN_FING 30361 13317 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) 18557484 33.32
Allergome 1739 1136 <0.01 119 Protein family/group databases
ArachnoServer 1149 1140 <0.01 127 Organism-specific databases
Araport 15706 15611 0.03 82 Organism-specific databases
Bgee 56225 56224 0.10 45 Gene expression databases
BindingDB 4902 4902 0.01 102 Chemistry
BioCyc 158213 154223 0.28 28 Enzyme and pathway databases
BioGrid 50473 49984 0.09 50 Protein-protein interaction databases
BioMuta 17244 17239 0.03 77 Polymorphism and mutation databases
BRENDA 12865 12093 0.02 86 Enzyme and pathway databases
CarbonylDB 1157 1157 <0.01 125 PTM databases
CAZy 9450 8524 0.02 89 Protein family/group databases
CCDS 47604 33882 0.09 52 Sequence databases
CDD 180711 165701 0.32 25 Family and domain databases
CGD 1987 1970 <0.01 117 Organism-specific databases
ChEMBL 6526 6526 0.01 93 Chemistry
ChiTaRS 20449 20439 0.04 67 Other
CleanEx 30019 29387 0.05 58 Gene expression databases
CollecTF 133 133 <0.01 146 Gene expression databases
COMPLUYEAST-2DPAGE 97 97 <0.01 147 2D gel databases
ConoServer 949 866 <0.01 128 Organism-specific databases
CORUM 5168 5168 0.01 99 Protein-protein interaction databases
CTD 74702 73823 0.13 43 Organism-specific databases
DEPOD 239 239 <0.01 143 PTM databases
dictyBase 4212 4097 0.01 105 Organism-specific databases
DIP 17336 17304 0.03 76 Protein-protein interaction databases
DisGeNET 14852 14615 0.03 83 Organism-specific databases
DisProt 708 703 <0.01 132 3D structure databases
DMDM 16360 16296 0.03 80 Polymorphism and mutation databases
DNASU 18952 18881 0.03 72 Protocols and materials databases
DOSAC-COBS-2DPAGE 145 145 <0.01 144 2D gel databases
DrugBank 18749 3637 0.03 73 Chemistry
EchoBASE 4159 4159 0.01 107 Organism-specific databases
EcoGene 4293 4293 0.01 104 Organism-specific databases
eggNOG 663444 331024 1.19 5 Phylogenomic databases
ELM 1809 1809 <0.01 118 Protein-protein interaction databases
EMBL 987926 545400 1.77 3 Sequence databases
Ensembl 88586 50151 0.16 41 Genome annotation databases
EnsemblBacteria 354412 335312 0.64 17 Genome annotation databases
EnsemblFungi 30460 28734 0.05 57 Genome annotation databases
EnsemblMetazoa 15867 10338 0.03 81 Genome annotation databases
EnsemblPlants 28653 21155 0.05 62 Genome annotation databases
EnsemblProtists 4960 4784 0.01 101 Genome annotation databases
EPD 20220 20220 0.04 70 Proteomic databases
ESTHER 2489 2489 <0.01 114 Protein family/group databases
euHCVdb 55 44 <0.01 149 Organism-specific databases
EuPathDB 37662 37482 0.07 55 Organism-specific databases
EvolutionaryTrace 16614 16614 0.03 79 Other
ExpressionAtlas 51074 51074 0.09 49 Gene expression databases
FlyBase 6137 5840 0.01 95 Organism-specific databases
Gene3D 358753 286966 0.64 16 Family and domain databases
GeneCards 20264 20095 0.04 68 Organism-specific databases
GeneDB 571 515 <0.01 135 Genome annotation databases
GeneID 289866 278931 0.52 22 Genome annotation databases
GeneReviews 1155 1152 <0.01 126 Organism-specific databases
GeneTree 59024 59004 0.11 44 Phylogenomic databases
Genevisible 55220 55220 0.10 46 Gene expression databases
GeneWiki 10366 10282 0.02 88 Other
GenomeRNAi 22005 22002 0.04 64 Other
GO 2846623 530529 5.11 1 Ontologies
Gramene 28653 21155 0.05 61 Genome annotation databases
GuidetoPHARMACOLOGY 2015 2015 <0.01 116 Chemistry
H-InvDB 5588 4768 0.01 98 Organism-specific databases
HAMAP 328983 326345 0.59 19 Family and domain databases
HGNC 20252 20110 0.04 69 Organism-specific databases
HOGENOM 390904 390904 0.70 15 Phylogenomic databases
HOVERGEN 75921 75921 0.14 42 Phylogenomic databases
HPA 27055 16795 0.05 63 Organism-specific databases
IMGT_GENE-DB 142 142 <0.01 145 Protein family/group databases
InParanoid 136766 136766 0.25 30 Phylogenomic databases
IntAct 52466 52466 0.09 47 Protein-protein interaction databases
InterPro 2212207 537770 3.97 2 Family and domain databases
iPTMnet 51222 51222 0.09 48 PTM databases
KEGG 504509 476023 0.91 7 Genome annotation databases
KO 403037 402589 0.72 14 Phylogenomic databases
LegioList 765 763 <0.01 131 Organism-specific databases
Leproma 672 669 <0.01 133 Organism-specific databases
MaizeGDB 509 505 <0.01 137 Organism-specific databases
MalaCards 4164 4162 0.01 106 Organism-specific databases
MaxQB 29726 29726 0.05 59 Proteomic databases
MEROPS 11381 11381 0.02 87 Protein family/group databases
MGI 16872 16832 0.03 78 Organism-specific databases
MIM 20756 14965 0.04 66 Organism-specific databases
MINT 21762 21762 0.04 65 Protein-protein interaction databases
MoonProt 63 63 <0.01 148 Protein family/group databases
mycoCLAP 359 354 <0.01 142 Protein family/group databases
neXtProt 20185 20182 0.04 71 Organism-specific databases
OGP 374 374 <0.01 141 2D gel databases
OMA 416058 416058 0.75 13 Phylogenomic databases
OpenTargets 18288 18133 0.03 75 Organism-specific databases
Orphanet 6144 3286 0.01 94 Organism-specific databases
OrthoDB 292799 292799 0.53 20 Phylogenomic databases
PANTHER 265863 253563 0.48 23 Family and domain databases
PATRIC 91733 91733 0.16 40 Genome annotation databases
PaxDb 124289 124289 0.22 33 Proteomic databases
PDB 158637 26179 0.28 26 3D structure databases
PDBsum 158637 26179 0.28 27 3D structure databases
PeptideAtlas 32068 32068 0.06 56 Proteomic databases
PeroxiBase 773 755 <0.01 130 Protein family/group databases
Pfam 754791 513645 1.36 4 Family and domain databases
PharmGKB 18371 18329 0.03 74 Organism-specific databases
PhosphoSitePlus 39001 39001 0.07 54 PTM databases
PhylomeDB 95531 95531 0.17 38 Phylogenomic databases
PIR 124032 113593 0.22 34 Sequence databases
PIRSF 108670 107641 0.20 37 Family and domain databases
PMAP-CutDB 1462 1462 <0.01 120 Other
PomBase 5133 5129 0.01 100 Organism-specific databases
PRIDE 141706 141706 0.25 29 Proteomic databases
PRINTS 132679 117218 0.24 32 Family and domain databases
PRO 95146 95146 0.17 39 Other
ProDom 29125 28942 0.05 60 Family and domain databases
ProMEX 453 453 <0.01 139 Proteomic databases
PROSITE 465324 297659 0.84 10 Family and domain databases
ProteinModelPortal 447822 447822 0.80 11 3D structure databases
Proteomes 477041 454462 0.86 9 Other
PseudoCAP 1332 1323 <0.01 121 Organism-specific databases
Reactome 123002 36463 0.22 35 Enzyme and pathway databases
REBASE 397 397 <0.01 140 Protein family/group databases
RefSeq 606520 462080 1.09 6 Sequence databases
REPRODUCTION-2DPAGE 1259 1038 <0.01 123 2D gel databases
RGD 7946 7945 0.01 90 Organism-specific databases
SABIO-RK 3846 3846 0.01 109 Enzyme and pathway databases
SFLD 14121 6500 0.03 85 Family and domain databases
SGD 6739 6734 0.01 91 Organism-specific databases
SignaLink 3026 3026 0.01 112 Enzyme and pathway databases
SIGNOR 4063 4063 0.01 108 Enzyme and pathway databases
SMART 191570 141407 0.34 24 Family and domain databases
SMR 439468 439468 0.79 12 3D structure databases
STRING 332036 332036 0.60 18 Protein-protein interaction databases
SUPFAM 493791 374926 0.89 8 Family and domain databases
SWISS-2DPAGE 1178 1178 <0.01 124 2D gel databases
SwissLipids 1314 1228 <0.01 122 Chemistry
SwissPalm 5947 5947 0.01 97 PTM databases
TAIR 14507 14452 0.03 84 Organism-specific databases
TCDB 6621 6584 0.01 92 Protein family/group databases
TIGRFAMs 292532 272523 0.53 21 Family and domain databases
TopDownProteomics 3247 2967 0.01 111 Proteomic databases
TreeFam 45249 45241 0.08 53 Phylogenomic databases
TubercuList 2186 2150 <0.01 115 Organism-specific databases
UCD-2DPAGE 497 497 <0.01 138 2D gel databases
UCSC 49794 45516 0.09 51 Genome annotation databases
UniCarbKB 584 584 <0.01 134 PTM databases
UniGene 109412 96095 0.20 36 Sequence databases
UniPathway 136220 123434 0.24 31 Enzyme and pathway databases
VectorBase 526 474 <0.01 136 Genome annotation databases
VGNC 3514 3514 0.01 110 Organism-specific databases
WBParaSite 34 34 <0.01 150 Genome annotation databases
World-2DPAGE 929 918 <0.01 129 2D gel databases
WormBase 5971 4566 0.01 96 Organism-specific databases
Xenbase 4529 4523 0.01 103 Organism-specific databases
ZFIN 3005 3005 0.01 113 Organism-specific databases
Total number of cross-referenced databases: 150
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) 6.61
Arg (R) 5.53 Glu (E) 6.73 Lys (K) 5.82 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) 4.72 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 3870 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: 79023