News (July 2020)

Increase in the data content of BRENDA in the last years

July 2007
July 2008 - July 2020
January 2021
Increase from 2007 to 2021
ACTIVATING COMPOUNDS*
18466
37857
19391 (105%)
APPLICATIONS*
27310
27310
CAS REGISTRY NUMBERS*
4532
4532
CLONED*
66847
66847
COFACTORS*
52878
52878
CRYSTALLIZATIONS*
17861
17861
EC CLASSES
4762
8150
3388 (71%)
ENGINEERING/MUTATIONS*
23234
111320
88086 (379%)
ENZYME SYNONYMS
53389
308247
254858 (477%)
EXPRESSION*
11092
11092
GENERAL INFORMATION*
64374
64374
GENERAL STABILITIES*
8637
8637
IC50 VALUES*
0
64455
64455
INHIBITORS*
112470
284996
172526 (153%)
KCAT/KM VALUES*
32865
32865
KI VALUES*
15736
44350
28614 (182%)
KM VALUES*
79431
167915
88484 (111%)
LIGAND 2D STRUCTURES
38488
247234
208746 (542%)
LIGANDS*
764282
2468852
1704570 (223%)
LOCALIZATION*
19011
62068
43057 (226%)
METALS AND IONS*
63909
63909
NATURAL SUBSTRATES OF ENZYMATIC REACTIONS*
51123
158519
107396 (210%)
ORGANIC SOLVENT STABILITIES*
3424
3424
ORGANISM
493145
493145
OXIDATION STABILITIES*
940
940
pH OPTIMA*
55294
55294
pH RANGES*
12568
12568
pH STABILITIES*
8533
8533
pI VALUES*
2060
6622
4562 (221%)
POSTTRANSLATIONAL MODIFICATIONS*
11574
11574
PURIFICATIONS*
63064
63064
REACTION TYPES*
13997
13997
REACTIONS
22165
22165
REFERENCE CITATIONS
108887
250936
142049 (130%)
REFERENCES
108887
250936
142049 (130%)
RENATURED*
1352
1352
SEQUENCES
283138
30675415
30392277 (10734%)
SOURCE TISSUE*
44110
155402
111292 (252%)
SPECIFIC ACTIVITIES*
58276
58276
STORAGE STABILITIES*
11233
11233
SUBSTRATES AND PRODUCTS
487581
487581
SUBUNITS*
68223
68223
TEMPERATURE OPTIMA*
38846
38846
TEMPERATURE RANGES*
6247
6247
TEMPERATURE STABILITIES*
25894
25894
TURNOVER NUMBERS*
80521
80521
 
July 2007
July 2008
July 2009
July 2010
July 2011
July 2012
July 2013
July 2014
July 2015
July 2016
July 2017
July 2018
July 2019
July 2020
Increase from 2007 to 2020
KM VALUES * ENZYMES * ORGANISMS*
79,431
89,012
100,155
110,297
113,332
121,298
126,725
133,580
136,392
141,365
145,378
151,160
156,474
160,279
80,848 (102%)
KI VALUES*
15,736
19,018
23,700
27,966
31,645
33,819
35,400
36,373
37,491
39,042
39,736
40,605
41,593
43,185
27,449 (174%)
pI VALUES*
2,060
2,477
3,067
3,562
3,916
4,251
4,326
4,644
4,825
5,018
5,237
5,990
5,876
6,334
4,274 (207%)
IC50 VALUES*
0
842
16,105
25,102
32,658
39,056
42,341
44,909
47,527
50,580
52,725
55,010
57,226
61,789
61,789
2D STRUCTURES OF ENZYME LIGANDS
38,488
51,606
63,093
74,979
85,507
99,733
109,264
112,456
113,775
122,631
126,763
134,798
140,194
148,409
109,921 (286%)
ENZYME LIGANDS*
764,282
849,197
942,772
1,033,523
1,094,165
1,152,437
1,258,645
1,435,021
1,502,677
1,556,053
1,626,129
1,702,470
1,787,195
1,875,136
1,110,854 (145%)
ENZYME INHIBITORS*
112,470
127,146
147,962
169,273
189,610
203,727
213,686
218,735
225,795
233,616
239,207
245,883
253,624
267,595
155,125 (138%)
ENZYME ACTIVATING COMPOUNDS*
18,466
20,306
23,167
26,508
28,238
29,068
30,404
30,426
31,067
31,538
31,947
32,568
33,098
34,000
15,534 (84%)
NATURAL SUBSTRATES OF ENZYMATIC REACTIONS*
51,123
58,296
64,507
71,628
76,255
81,099
97,444
102,754
109,650
115,919
123,143
133,521
143,388
152,778
101,655 (199%)
ENGINEERING/MUTATIONS*
23,234
30,437
39,905
48,366
54,821
59,841
64,438
72,591
80,942
82,500
86,626
90,840
97,713
103,393
80,159 (345%)
SEQUENCES
283,138
629,980
843,200
1,164,575
1,704,881
2,379,665
4,033,680
6,801,159
12,263,175
7,230,588
9,621,112
13,134,532
13,959,301
22,352776
22,069,638 (7,795%)
SOURCE TISSUE*
44,110
53,547
64,291
74,817
83,090
87,632
90,627
96,298
100,958
101,897
105,248
108,332
112,238
116,477
77,367 (164%)
LOCALIZATION*
19,011
21,857
24,757
27,403
29,229
30,894
32,508
36,194
37,944
38,805
40,293
41,461
42,920
45,163
26,152 (138%)
REFERENCE CITATIONS
108,887
113,626
130,530
145,130
157,280
165,237
184,540
193,516
201,940
208,234
215,406
222,679
232,086
242,448
133,561 (123%)
LITERATURE REFERENCES
68,366
78,598
91,441
102,347
112,389
118,646
122,736
128,108
132,579
136,877
141,047
145,177
150,701
156,930
88,564 (130%)
EC CLASSES
4,762
4,824
4,933
5,116
5,372
5,725
6,137
6,549
6,763
6,958
7,271
7,512
7,867
8,083
3,321 (70%)
ENZYME SYNONYMS
53,389
67,566
83,459
99,776
112,398
121,001
155,386
159,874
170,794
178,071
189,460
200,445
215,234
231,760
178,371 (334%)
* = The numbers denote the enzyme-organism-(protein-)commentary-reference-specific occurrences. For kinetic values (Km, Ki, kcat) and ligand-specific fields (Inhibitors, Activating Compounds, Ligands) the corresponding enzyme ligand is also taken into account.
For example, when the identical pI (isoelectric point) was measured for different enzymes or the identical enzyme from different organisms the information is included for each EC number and organism-specific enzyme isoform, respectively.

New Features & Functionalities in 2020

  • Updates of enzymes refering to COVID-19 and SARS-Cov-2, 3.4.17.23 and 3.4.22.69
  • Revolutionized enzyme summary pages and metabolic pathway maps
  • Revised enzyme proposal tool
  • Calculation of expected taxonomic range extended by information derived from UniProt
  • Gene names marked as such on the enzyme summary pages
  • JSMOL-Viewer for the 3D visualization of protein structures changed to NGL-Viewer

New Features & Functionalities in 2019

  • “Localizaton Prediction” determining the subcellular localizaton of eukaryotic proteins automatically
  • Revised metabolic pathway maps
  • Revised enzyme and ligand summary pages

New Features & Functionalities in 2018

  • More userfriendly structure search for ligands extended with a similarity and isomer search
  • BKMS equipped with a new pathway list
  • Ligand summary pages extended by links to PDB IDs
  • Word Maps providing graphical information on terms and perceptions associated with specific taxonomic terms included (accessible via the start page)
  • Result pages for taxonomic terms (accessible via the Word Maps for taxonomic terms)
  • All manually annotated BRENDA data can be downloaded as a single text file. See section 'Download'.

New Features & Functionalities in 2017

  • 15 metabolic pathways were added to the BRENDA pathway maps.
  • TaxonomyTree extended by BRENDA strains
  • Revision of the organism-specific pathways
  • Revision of the ligand summary pages (according to the result pages in release 2016.2)
  • new tutorials (video and pdf)
  • BKMReact extended by SabioRK reactions
  • Links to DoGSiteScorer (software to detect potential binding pockets) and ProToss (fully automated hydrogen prediction tool for protein-ligand complexes) from the result pages of the 3D Structure Search

New Features & Functionalities in 2016

  • New BRENDA pathway maps are online. Pathways can be selected for an indivdual organism or for a taxonomic group.
  • The BRENDA start page is modified in order to present a new and modern easy-to-use interface.
  • Revision of the result pages for a better user experience:
    • Further acceleration of the display..
    • Sortable columns in all data fields.
    • Hide and show data fields.
    • Improved print functions.

New Features & Functionalities in 2015

  • The BRENDA pathway maps are online. 280 pathways can be displayed. They show ~2000 enzyme-catalyzed reactions. All metabolites and cofactors are linked to the BRENDA data.
  • The new MeSH ontology based on www.nlm.nih.gob/mesh now includes diesease terms and enzyme-disease relations
  • Links to the Biochemical Reaction Kinetics Database SABIO RK in the result pages
  • Acceleration of the result page display
  • The BRENDA Web interface is completely modified and presents a new and modern easy-to-use interface.
  • Word Maps are introduced for 3400 EC classes. The more frequently a word is specifically associated with an enzyme in a literature text, the more prominent it will be presented in the word map. Colors and links are used to provide information of the displayed term.
  • The Enzyme Detector (ED) has been upgraded and equipped with a new algorithm. More data are included in the calculation. These improvements lead to better predictions with a better reliability.
  • The BKM (Biochemical Reactions Aligned) website has been improved. It contains ~22,000 unique enzyme-catalyzed reactions on natural substrates i.e. twice as much as any of the three integrated database (BRENDA, KEGG, MetaCyc).

New Features & Functionalities in 2014

  • The human anatomy atlas CAVEman an ontology for body parts, organs and tissues was included. The terms were linked to the BRENDA tissue terms.
  • BRENDA-Professional provides INChI strings for Ligand structures (http://www.genexplain.com).
  • Strain denominations were added to microorganisms. Enzyme information can be searched and displayed for single strains.

New Features & Functionalities since 2009

In 2009 the content of BRENDA has been substantially increased (see also table above). In addition, many new features & functionalities have been added to the web interface.

The most important recent developments are:

  • ca. 30,000 new literature references since 2009
    The total amount of manually evaluated literature references comprises now more than 120,000 enzyme-specific references.

  • DRENDA (Disease Related ENzyme information DAtabase) - Improvement of the disease-centered textmining approach
    Automated detection of many enzyme-disease relationships by an enhanced disease mining approach which increases the number of literature references in this field by more than tenfold (now more than 400,000 references automatically annotated):
    Search Disease/Diagnostics

  • KENDA (Kinetic ENzyme DAta)
    KENDA is a new supplement to the BRENDA database providing an additional overview on functional kinetic data of enzymes.This additional resource is based on a text-mining resource extracting kinetic values and expressions (KM, Ki, kcat, Vmax etc.)
    Search KENDA

  • BKM-react
    BKM-react is an integrated and non-redundant biochemical reaction database containing known enzyme-catalyzed and spontaneous reactions. Biochemical reactions collected from BRENDA (BRaunschweig ENzyme DAtabase), KEGG, and MetaCyc were matched and integrated by aligning substrates and products.
    Search BKM-react

  • New ligand summary view
    This new site enhances the search for the more than 105,000 enzyme ligands (small molecules) contained in BRENDA. It constitutes a ligand-centric view to the BRENDA data as a complement to the enzyme-centric view of the enzyme summary page (see e.g. EC 1.2.3.4):
    Example for a Ligand Summary View

  • Distribution of Functional Enzyme Parameters
    This new site displays the frequency distribution (histogram) of a functional enzyme parameter such as the number of enzymes for different Km value ranges. It also allows to focus on one of the six EC main classes or the three main taxonomic groups (Archaea, Bacteria, Eukaryota):
    Histograms of Functional Enzyme ParametersFunctional Enzyme Parameters

  • Enhanced view of enzyme 3D structure
    The search site for 3D structure/PDB link now offers the possibility to display the protein sequence motifs in the 3D structure of an enzyme.
    It offers e.g. access to 360,987 active sites, 624,866 metal ion-binding sites and 182,223 nucleotide phosphate-binding regions.
    Example for the enhanced 3D enzyme structure view (marked in yellow)

  • New protein-specific display option for enzymes
    The enzyme summary page was expanded by a protein-specific enzyme search/display option which allows to focus on a single enzyme isoform (protein variant) of the organism of interest. The specification is done via the UniProt Acc.:
    Search for UniProt Accessions

  • Inclusion of MetaCyc pathways
    The Search Pathway form was expanded to also include metabolic pathways MetaCyc (in addition to the KEGG pathways):
    Search Pathway

  • New SBML output option for enzyme-kinetic parameters
    The new site allows the construction of organism-specific metabolic models from BRENDA data using the SBML (Systems Biology Markup Language) format:
    SBML Output Site SBML Logo

  • Improvement of the disease-centered textmining approach
    Automated detection of many enzyme-disease relationships by an enhanced disease mining approach which increases the number of literature references in this field by more than tenfold (now more than 400,000 references automatically annotated):
    Search Disease/Diagnostics