CyclicPepedia Knowledge Base
PubChem 2024.01.02
PubChem is a chemical substance database maintained by the National Center for Biotechnology Information (NCBI) in the United States. It contains over 100 million compounds, 160 million bioactivity data, and related literature information.
DrugBank 2020.06.12
DrugBank is a comprehensive online database that provides information on drugs, drug targets, and drug interactions. The database contains detailed information on over 13,000 drugs, including their chemical structures, pharmacological properties, indications, and side effects.
DPL2 2024.01.25
The database provides receptor information for peptide ligands.
APD3 2024.01
APD3 (Antimicrobial Peptide Database 3) is a comprehensive online database that provides information on antimicrobial peptides (AMPs) from a variety of sources, including animals, plants, bacteria, and fungi.
DRAMP3 2023.11.04
DRAMPs (Defensin Related AMPs) are a class of antimicrobial peptides (AMPs) that are structurally related to defensins. They are typically small, cationic peptides that have a broad-spectrum antimicrobial activity against bacteria, fungi, and viruses.
Uniprot 2023.05
UniProt is a comprehensive protein sequence and functional information database. It is a collaboration between the European Bioinformatics Institute (EBI), the Swiss Institute of Bioinformatics (SIB), and the Protein Information Resource (PIR) in the United States.
Cybase 2024.01.11
The CYBASE (Cyclopeptide Database) is a Database dedicated to collecting and providing information about cyclopeptides. Cyclic peptide is a kind of protein or peptide molecule with circular structure, which is usually synthesized by non-classical protein synthesis pathway.
Norine 2023.05
Norine (Nonribosomal Peptide Database) is a Database of non-protein peptides that record non-ribosomal synthesized peptides from different organisms. These peptides are usually composed of Ribosomal protein synthetase, which is different from the traditional protein synthesis pathway.
ConoServer 2024.01.11
ConoServer is a database designed to collect and display information about cone snail peptides. Snails are a group of marine organisms, which produce cyclic peptides with diverse structures and biological activities.
BindingDB 2023.12.28
BindingDB is a public database of measured binding affinities, focusing chiefly on the interactions of protein considered to be drug-targets with small, drug-like molecules.
ChEMBL 2023.05.31
CHEMBL (ChEMBL Database) is a publicly available database of bioactive molecules with drug-like properties, and their associated targets and binding properties.
ChEBI 2024.01.25
CHEBI (Chemical Entities of Biological Interest) is a database of small molecules and related compounds, which are of interest in biological research. CHEBI is maintained by the European Bioinformatics Institute (EBI), and is freely available to the public.
Comparative Toxicogenomics Database (CTD) 2024.01.04
CTD stands for Comparative Toxicogenomics Database. It is a public database that aims to promote understanding about the effects of environmental chemicals on human health.
Wikipedia 2024.01.25
It is maintained by the Wikimedia Foundation, a non-profit organization that operates on donations. Wikipedia is written collaboratively by volunteers from all around the world and covers a wide range of topics in different languages.
KEGG 2023.11.01
KEGG (Kyoto Encyclopedia of Genes and Genomes) is a collection of databases that provide information on biological pathways, diseases, drugs, and organisms.
EPA DSSTox 2024.01.10
EPA DSSTox (Distributed Structure-Searchable Toxicity) is a database of chemical structures and associated toxicity data, developed by the United States Environmental Protection Agency (EPA).
FDA Global Substance Registration System 2023.06.14
The FDA Global Substance Registration System (GSRS) is a database that contains information on substances that are regulated by the US Food and Drug Administration (FDA).
DTP Datawarehous 2023.04.27
The DTP Datawarehouse is a database maintained by the Division of Cancer Treatment and Diagnosis (DTP) at the National Cancer Institute (NCI) in the United States.
ChemSpider 2022.0.72.0
ChemSpider is a free chemical structure database provided by the Royal Society of Chemistry. It contains information on millions of chemical compounds, including their chemical structures, properties, and spectra.
NCBI 2024.01.25
The National Center for Biotechnology Information (NCBI) is a branch of the National Library of Medicine (NLM), which is part of the National Institutes of Health (NIH) in the United States. Established in 1988, NCBI serves as a vital resource in the field of bioinformatics, genomics, and molecular biology.
PDB 2024.01.25
PDB (Protein Data Bank) is a database that provides information on the three-dimensional structures of proteins, nucleic acids, and complex assemblies. It is a repository of experimentally determined structures of biological macromolecules, including proteins, nucleic acids, and complex assemblies.
Alphafold Protein Structure Database 2024.01.25
AlphaFold DB provides open access to over 200 million protein structure predictions to accelerate scientific research.
PubMed 2023.08.15
PubMed is a free search engine provided by the National Library of Medicine (NLM) that allows users to search and access citations and abstracts of biomedical literature.
Struc2seq Version 1.0.1
Structure-to-Sequence (Struc2seq) is a computing process based on RDkit and the characteristics of cyclic peptide sequences developed by CyclicPepedia, which can convert cyclic peptide SMILES into sequence information.
Seq2Struc Version 1.0.0
Sequence-to-Structure (Seq2struc) is a computing process based on RDkit and the characteristics of cyclic peptide sequences developed by CyclicPepedia, which can create cyclic peptide sequecne and convert sequence to cyclic peptide SMILES.
Cyclic peptide graph alignment (GA) Version 1.0.0
The alignment algorithm is developed by CyclicPepedia based on networkx extension, which can convert cyclic peptides into graphical structures and align them accordingly.
Peptide properties (PP) Version 1.0.1
The peptide properties (PP) algorithm is developed by CyclicPepedia based on RDkit and Peptides (R) to predict structure and sequence properties.
RDKit 2023.09.04
RDKit is an open-source software toolkit for cheminformatics and machine learning. It is widely used in the pharmaceutical industry and academic research for drug discovery, chemical informatics, and materials science.
Peptides Version 2.4.6
R package to calculate several physicochemical properties and indices for amino-acid sequences as well as to read and plot 'XVG' output files from the 'GROMACS' molecular dynamics package
Ketcher Version 2.0
Ketcher is an open-source web-based chemical structure editor. Ketcher is designed for chemists, laboratory scientists and technicians who draw structures and reactions. Ketcher is developed using pure JavaScript and incorporates high performance, good portability and light weight. You will not need any Java or Flash plugins to use it in your browser.
Jsmol Version 16.1
Jsmol, an open-source Java viewer for chemical structures in 3D with features for chemicals, crystals, materials and biomolecules. JSmol is the HTML5 modality of Jmol, able to be embedded into web pages. All the functionality of Jmol (as a standalone application) is also present in JSmol.
Alphafold Version 16.2
AlphaFold is an artificial intelligence (AI) program developed by DeepMind, a subsidiary of Alphabet, which performs predictions of protein structure. The program is designed as a deep learning system.
Similarity Ensemble Approach (SEA) Version 16.3
Similarity Ensemble Approach (Sea) is a computational method for calculating Similarity between compounds and protein targets. The method combines the similarity of drug and biological targets to predict possible interactions between compounds and specific targets.
Pharmasources Version 16.4
Pharmasources is a leading B2B platform for the pharmaceutical industry in China. It provides a comprehensive range of services to connect buyers and suppliers in the pharmaceutical industry, including pharmaceutical raw materials, intermediates, APIs, and finished products.
Upsher smith laboratories Version 16.5
Upsher-Smith Laboratories is a pharmaceutical company based in the United States. The company was founded in 1919 and has a long history of developing and manufacturing high-quality generic and branded pharmaceutical products.
Apotex Version 16.6
Apotex is a Canadian pharmaceutical company that specializes in the development, manufacturing, and distribution of generic and branded drugs.Apotex has a global presence, with operations in over 45 countries and a portfolio of over 300 generic and branded products in various therapeutic areas, including cardiovascular, central nervous system, and anti-infective drugs.
AstraZeneca Version 16.7
AstraZeneca is a multinational pharmaceutical company headquartered in the United Kingdom. AstraZeneca is one of the largest pharmaceutical companies in the world, with a presence in over 100 countries and a portfolio of products in various therapeutic areas, including oncology, cardiovascular, respiratory, and immunology.
Sanofi Version 16.8
Sanofi is a global pharmaceutical company with headquarters in France. The company was formed in 2004 through the merger of Sanofi-Synthélabo and Aventis. Sanofi has a presence in over 170 countries and a portfolio of products in various therapeutic areas, including diabetes, cardiovascular, oncology, and immunology.
Novartis Version 16.9
Novartis is a multinational pharmaceutical company based in Switzerland. The company was founded in 1996 through the merger of two other pharmaceutical companies, Ciba-Geigy and Sandoz. Novartis is one of the largest pharmaceutical companies in the world, with a presence in over 150 countries and a portfolio of over 750 products in various therapeutic areas, including oncology, cardiovascular, immunology, and neuroscience.
Par Pharmaceutical Version 16.10
Par Pharmaceutical is a pharmaceutical company that specializes in the development, manufacturing, and distribution of generic drugs. Par Pharmaceutical's portfolio includes a wide range of generic drugs in various therapeutic areas, including cardiovascular, central nervous system, and anti-infective drugs.
Bayer healthcare pharmaceuticals Version 16.11
Bayer Healthcare Pharmaceuticals is a division of the global pharmaceutical and life sciences company, Bayer AG. It focuses on developing and marketing innovative pharmaceutical products and medical devices to improve the health and well-being of people worldwide.
CreativePeptides
Creative Peptides is specialized in the process development and the manufacturing of bioactive peptides. We are dedicated to offering custom peptide synthesis, process development, GMP manufacturing as well as catalog products for customers in industry and research area. Creative Peptides is staffed by scientific teams with experts in the field of peptide technology, antibodies and synthetic chemistry.