Table of Contents
55 relations: Biochemist, Biocuration, Biological Magnetic Resonance Data Bank, Biologist, Brookhaven National Laboratory, Cambridge Crystallographic Data Centre, CATH database, Chemical shift, Coordinated Universal Time, Cryogenic electron microscopy, Crystallographic database, Crystallographic Information File, Database, Discovery Studio, Distance geometry, EM Data Bank, Gene Ontology, Helen M. Berman, Jmol, Joel Sussman, Macromolecular Crystallographic Information File, MDL Chime, Nature (journal), Nuclear magnetic resonance spectroscopy of proteins, Nucleic acid, PDBREPORT, PDBsum, Protein, Protein Data Bank (file format), Protein structure, Protein structure database, Protein structure prediction, Proteopedia, Punched card, PyMOL, RasMol, Rutgers University, San Diego Supercomputer Center, Shareware, Sirius visualization software, Structural biology, Structural Classification of Proteins database, Structural genomics, Structure factor, Swiss Institute of Bioinformatics, Texas A&M University, Transmission electron cryomicroscopy, UCSF Chimera, University of California, San Diego, URL, ... Expand index (5 more) »
- Crystallographic databases
Biochemist
Biochemists are scientists who are trained in biochemistry.
See Protein Data Bank and Biochemist
Biocuration
Biocuration is the field of life sciences dedicated to organizing biomedical data, information and knowledge into structured formats, such as spreadsheets, tables and knowledge graphs. Protein Data Bank and Biocuration are biological databases.
See Protein Data Bank and Biocuration
Biological Magnetic Resonance Data Bank
The Biological Magnetic Resonance Data Bank (BioMagResBank or BMRB) is an open access repository of nuclear magnetic resonance (NMR) spectroscopic data from peptides, proteins, nucleic acids and other biologically relevant molecules. Protein Data Bank and biological Magnetic Resonance Data Bank are biological databases.
See Protein Data Bank and Biological Magnetic Resonance Data Bank
Biologist
A biologist is a scientist who conducts research in biology.
See Protein Data Bank and Biologist
Brookhaven National Laboratory
Brookhaven National Laboratory (BNL) is a United States Department of Energy national laboratory located in Upton, Long Island, a hamlet of the Town of Brookhaven.
See Protein Data Bank and Brookhaven National Laboratory
Cambridge Crystallographic Data Centre
The Cambridge Crystallographic Data Centre (CCDC) is a non-profit organisation based in Cambridge, England.
See Protein Data Bank and Cambridge Crystallographic Data Centre
CATH database
The CATH Protein Structure Classification database is a free, publicly available online resource that provides information on the evolutionary relationships of protein domains. Protein Data Bank and CATH database are biological databases and protein structure.
See Protein Data Bank and CATH database
Chemical shift
In nuclear magnetic resonance (NMR) spectroscopy, the chemical shift is the resonant frequency of an atomic nucleus relative to a standard in a magnetic field.
See Protein Data Bank and Chemical shift
Coordinated Universal Time
Coordinated Universal Time (UTC) is the primary time standard globally used to regulate clocks and time.
See Protein Data Bank and Coordinated Universal Time
Cryogenic electron microscopy
Cryogenic electron microscopy (cryo-EM) is a cryomicroscopy technique applied on samples cooled to cryogenic temperatures. Protein Data Bank and cryogenic electron microscopy are protein structure.
See Protein Data Bank and Cryogenic electron microscopy
Crystallographic database
A crystallographic database is a database specifically designed to store information about the structure of molecules and crystals. Protein Data Bank and crystallographic database are crystallographic databases.
See Protein Data Bank and Crystallographic database
Crystallographic Information File
Crystallographic Information File (CIF) is a standard text file format for representing crystallographic information, promulgated by the International Union of Crystallography (IUCr).
See Protein Data Bank and Crystallographic Information File
Database
In computing, a database is an organized collection of data or a type of data store based on the use of a database management system (DBMS), the software that interacts with end users, applications, and the database itself to capture and analyze the data.
See Protein Data Bank and Database
Discovery Studio
Discovery Studio is a suite of software for simulating small molecule and macromolecule systems.
See Protein Data Bank and Discovery Studio
Distance geometry
Distance geometry is the branch of mathematics concerned with characterizing and studying sets of points based only on given values of the distances between pairs of points.
See Protein Data Bank and Distance geometry
EM Data Bank
The EM Data Bank or Electron Microscopy Data Bank (EMDB) collects 3D EM maps and associated experimental data determined using electron microscopy of biological specimens. Protein Data Bank and eM Data Bank are biological databases.
See Protein Data Bank and EM Data Bank
Gene Ontology
The Gene Ontology (GO) is a major bioinformatics initiative to unify the representation of gene and gene product attributes across all species. Protein Data Bank and gene Ontology are biological databases.
See Protein Data Bank and Gene Ontology
Helen M. Berman
Helen Miriam Berman is a Board of Governors Professor of Chemistry and Chemical Biology at Rutgers University and a former director of the RCSB Protein Data Bank (one of the member organizations of the Worldwide Protein Data Bank).
See Protein Data Bank and Helen M. Berman
Jmol
Jmol is computer software for molecular modelling chemical structures in 3-dimensions.
See Protein Data Bank and Jmol
Joel Sussman
Joel L. Sussman (born September 24, 1943) is an Israeli crystallographer best known for his studies on acetylcholinesterase, a key protein involved in transmission of nerve signals.
See Protein Data Bank and Joel Sussman
Macromolecular Crystallographic Information File
The Macromolecular Crystallographic Information File (mmCIF) also known as PDBx/mmCIF is a standard text file format for representing macromolecular structure data, developed by the International Union of Crystallography (IUCr) and the Protein Data Bank It is an extension of the Crystallographic Information File (CIF), specifically for macromolecular data, such as proteins and nucleic acids, incorporating elements from the PDB file format.
See Protein Data Bank and Macromolecular Crystallographic Information File
MDL Chime
MDL Chime was a free plugin used by web browsers to display the three-dimensional structures of molecules.
See Protein Data Bank and MDL Chime
Nature (journal)
Nature is a British weekly scientific journal founded and based in London, England.
See Protein Data Bank and Nature (journal)
Nuclear magnetic resonance spectroscopy of proteins
Nuclear magnetic resonance spectroscopy of proteins (usually abbreviated protein NMR) is a field of structural biology in which NMR spectroscopy is used to obtain information about the structure and dynamics of proteins, and also nucleic acids, and their complexes. Protein Data Bank and Nuclear magnetic resonance spectroscopy of proteins are protein structure.
See Protein Data Bank and Nuclear magnetic resonance spectroscopy of proteins
Nucleic acid
Nucleic acids are large biomolecules that are crucial in all cells and viruses.
See Protein Data Bank and Nucleic acid
PDBREPORT
The PDBREPORT database is a database of anomalies and errors found in structures of biological molecules in the Protein Data Bank. Protein Data Bank and PDBREPORT are biological databases and protein structure.
See Protein Data Bank and PDBREPORT
PDBsum
PDBsum is a database that provides an overview of the contents of each 3D macromolecular structure deposited in the Protein Data Bank (PDB). Protein Data Bank and PDBsum are biological databases.
See Protein Data Bank and PDBsum
Protein
Proteins are large biomolecules and macromolecules that comprise one or more long chains of amino acid residues.
See Protein Data Bank and Protein
Protein Data Bank (file format)
The Protein Data Bank (PDB) file format is a textual file format describing the three-dimensional structures of molecules held in the Protein Data Bank, now succeeded by the mmCIF format.
See Protein Data Bank and Protein Data Bank (file format)
Protein structure
Protein structure is the three-dimensional arrangement of atoms in an amino acid-chain molecule.
See Protein Data Bank and Protein structure
Protein structure database
In biology, a protein structure database is a database that is modeled around the various experimentally determined protein structures. Protein Data Bank and protein structure database are biological databases.
See Protein Data Bank and Protein structure database
Protein structure prediction
Protein structure prediction is the inference of the three-dimensional structure of a protein from its amino acid sequence—that is, the prediction of its secondary and tertiary structure from primary structure. Protein Data Bank and protein structure prediction are bioinformatics and protein structure.
See Protein Data Bank and Protein structure prediction
Proteopedia
Proteopedia is a wiki, 3D encyclopedia of proteins and other molecules. Protein Data Bank and Proteopedia are biological databases.
See Protein Data Bank and Proteopedia
Punched card
A punched card (also punch card or punched-card) is a piece of card stock that stores digital data using punched holes.
See Protein Data Bank and Punched card
PyMOL
PyMOL is a source-available molecular visualization system created by Warren Lyford DeLano.
See Protein Data Bank and PyMOL
RasMol
RasMol is a computer program written for molecular graphics visualization intended and used mainly to depict and explore biological macromolecule structures, such as those found in the Protein Data Bank (PDB).
See Protein Data Bank and RasMol
Rutgers University
Rutgers University, officially Rutgers, The State University of New Jersey, is a public land-grant research university consisting of four campuses in New Jersey.
See Protein Data Bank and Rutgers University
San Diego Supercomputer Center
The San Diego Supercomputer Center (SDSC) is an organized research unit of the University of California, San Diego (UCSD).
See Protein Data Bank and San Diego Supercomputer Center
Shareware
Shareware is a type of proprietary software that is initially shared by the owner for trial use at little or no cost.
See Protein Data Bank and Shareware
Sirius visualization software
Sirius is a molecular modelling and analysis system developed at San Diego Supercomputer Center.
See Protein Data Bank and Sirius visualization software
Structural biology
Structural biology, as defined by the Journal of Structural Biology, deals with structural analysis of living material (formed, composed of, and/or maintained and refined by living cells) at every level of organization. Protein Data Bank and structural biology are protein structure.
See Protein Data Bank and Structural biology
Structural Classification of Proteins database
The Structural Classification of Proteins (SCOP) database is a largely manual classification of protein structural domains based on similarities of their structures and amino acid sequences. Protein Data Bank and structural Classification of Proteins database are biological databases and protein structure.
See Protein Data Bank and Structural Classification of Proteins database
Structural genomics
Structural genomics seeks to describe the 3-dimensional structure of every protein encoded by a given genome. Protein Data Bank and Structural genomics are bioinformatics.
See Protein Data Bank and Structural genomics
Structure factor
In condensed matter physics and crystallography, the static structure factor (or structure factor for short) is a mathematical description of how a material scatters incident radiation.
See Protein Data Bank and Structure factor
Swiss Institute of Bioinformatics
The SIB Swiss Institute of Bioinformatics is an academic not-for-profit foundation which federates bioinformatics activities throughout Switzerland.
See Protein Data Bank and Swiss Institute of Bioinformatics
Texas A&M University
Texas A&M University (Texas A&M, A&M, or TAMU) is a public, land-grant, research university in College Station, Texas.
See Protein Data Bank and Texas A&M University
Transmission electron cryomicroscopy
Transmission electron cryomicroscopy (CryoTEM), commonly known as cryo-EM, is a form of cryogenic electron microscopy, more specifically a type of transmission electron microscopy (TEM) where the sample is studied at cryogenic temperatures (generally liquid-nitrogen temperatures). Protein Data Bank and transmission electron cryomicroscopy are protein structure.
See Protein Data Bank and Transmission electron cryomicroscopy
UCSF Chimera
UCSF Chimera (or simply Chimera) is an extensible program for interactive visualization and analysis of molecular structures and related data, including density maps, supramolecular assemblies, sequence alignments, docking results, trajectories, and conformational ensembles.
See Protein Data Bank and UCSF Chimera
University of California, San Diego
The University of California, San Diego (UC San Diego or colloquially, UCSD) is a public land-grant research university in San Diego, California.
See Protein Data Bank and University of California, San Diego
URL
A uniform resource locator (URL), colloquially known as an address on the Web, is a reference to a resource that specifies its location on a computer network and a mechanism for retrieving it.
Visual Molecular Dynamics
Visual Molecular Dynamics (VMD) is a molecular modelling and visualization computer program.
See Protein Data Bank and Visual Molecular Dynamics
Weizmann Institute of Science
The Weizmann Institute of Science (מכון ויצמן למדע Machon Weizmann LeMada) is a public research university in Rehovot, Israel, established in 1934, fourteen years before the State of Israel was founded.
See Protein Data Bank and Weizmann Institute of Science
Worldwide Protein Data Bank
The Worldwide Protein Data Bank, wwPDB, is an organization that maintains the archive of macromolecular structure. Protein Data Bank and Worldwide Protein Data Bank are biological databases.
See Protein Data Bank and Worldwide Protein Data Bank
X-ray crystallography
X-ray crystallography is the experimental science of determining the atomic and molecular structure of a crystal, in which the crystalline structure causes a beam of incident X-rays to diffract in specific directions. Protein Data Bank and x-ray crystallography are protein structure.
See Protein Data Bank and X-ray crystallography
XML
Extensible Markup Language (XML) is a markup language and file format for storing, transmitting, and reconstructing arbitrary data.
See also
Crystallographic databases
- Bilbao Crystallographic Server
- Cambridge Structural Database
- Crystallographic database
- Crystallography Open Database
- Database of protein conformational diversity
- Inorganic Crystal Structure Database
- ProtCID
- Protein Data Bank
References
Also known as PDB pioneers, Protein Segment Finder, RCSB, Research Collaboration for Structural Biology.