2017-07-30T07:27:23+03:00[Europe/Moscow] en true Foldit, Simple Modular Architecture Research Tool, Protein secondary structure, Dihedral angle, [email protected], Denaturation (biochemistry), Ubiquitin, [email protected], Protein tertiary structure, Intelectin, WHAT IF software, Voltage sensitive phosphatase, CARD domain, Disulfide, 3did, Structural Classification of Proteins database, Brix (database), Geworkbench, Biomolecule stretching database, L27 domain, Nucleotide pyrophosphatase/phosphodiesterase, Alpha helix, Guanidinium chloride, DIMA (database), ProtCID, Structure validation, Cystine knot, ModBase, X-ray crystallography, Nuclear magnetic resonance spectroscopy of proteins, Circular dichroism, Conformational dynamics data bank, Conformational entropy, SHIFTCOR, Arthur M. Lesk, CATH database, Conserved Domain Database, Database of protein conformational diversity flashcards
Protein structure

Protein structure

  • Foldit
    Foldit is an online puzzle video game about protein folding.
  • Simple Modular Architecture Research Tool
    Simple Modular Architecture Research Tool (SMART) is a biological database that is used in the identification and analysis of protein domains within protein sequences.
  • Protein secondary structure
    In biochemistry and structural biology, protein secondary structure is the general three-dimensional form of local segments of proteins.
  • Dihedral angle
    A dihedral angle is the angle between two intersecting planes.
  • [email protected] (FAH or [email protected]) is a distributed computing project for disease research that simulates protein folding, computational drug design, and other types of molecular dynamics.
  • Denaturation (biochemistry)
    Denaturation is a process in which proteins or nucleic acids lose the quaternary structure, tertiary structure and secondary structure which is present in their native state, by application of some external stress or compound such as a strong acid or base, a concentrated inorganic salt, an organic solvent (e.g., alcohol or chloroform), radiation or heat.
  • Ubiquitin
    Ubiquitin is a small (8.5 kDa) regulatory protein that has been found in almost all tissues (ubiquitously) of eukaryotic organisms.
  • [email protected] is a distributed computing project for protein structure prediction on the Berkeley Open Infrastructure for Network Computing (BOINC) platform, run by the Baker laboratory at the University of Washington.
  • Protein tertiary structure
    The term protein tertiary structure refers to a protein's geometric shape.
  • Intelectin
    Intelectins are lectins (carbohydrate-binding proteins) expressed in humans and other chordates.
  • WHAT IF software
    WHAT IF is a computer program used in a wide variety of computational (in silico) macromolecular structure research fields.
  • Voltage sensitive phosphatase
    Voltage sensitive phosphatases or voltage sensor-containing phosphatases, commonly abbreviated VSPs, are a protein family found in many species, including humans, mice, zebrafish, frogs, and sea squirt.
  • CARD domain
    Caspase recruitment domains, or Caspase activation and recruitment domains (CARDs), are interaction motifs found in a wide array of proteins, typically those involved in processes relating to inflammation and apoptosis.
  • Disulfide
    In chemistry and biology a disulfide refers to a functional group with the general structure R–S–S–R'.
  • 3did
    The database of three-dimensional interacting domains (3did) is a biological database containing a catalogue of protein-protein interactions for which a high-resolution 3D structure is known.
  • 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.
  • Brix (database)
    There are very few loops registered in Brix, so to address this issue, Loop Brix was added to the system to help structure non-regular elements.
  • Geworkbench
    geWorkbench (genomics Workbench) is an open-source software platform for integrated genomic data analysis.
  • Biomolecule stretching database
    The Biomolecule Stretching Database contains information about the mechanostability of proteins based on their resistance to stretching.
  • L27 domain
    The L27 domain is a protein domain that is found in receptor targeting proteins Lin-2 and Lin-7 (LIN7A, LIN7B, LIN7C), as well as some protein kinases and human MPP2 protein.
  • Nucleotide pyrophosphatase/phosphodiesterase
    Nucleotide pyrophosphatase/phosphodiesterase (NPP) is a class of dimeric enzymes that catalyze the hydrolysis of phosphate diester bonds.
  • Alpha helix
    The alpha helix (α-helix) is a common motif in the secondary structure of proteins and is a righthand-coiled or spiral conformation (helix) in which every backbone N-H group donates a hydrogen bond to the backbone C=O group of the amino acid located three or four residues earlier along the protein sequence.
  • Guanidinium chloride
    Guanidinium chloride or guanidine hydrochloride, usually abbreviated GdmCl and sometimes GdnHCl or GuHCl, is the hydrochloride salt of guanidine.
  • DIMA (database)
    The Domain Interaction MAp (DIMA) is a database of predicted and known interactions between protein domains.
  • ProtCID
    The Protein Common Interface Database (ProtCID) is a database of similar protein-protein interfaces in crystal structures of homologous proteins.
  • Structure validation
    Macromolecular structure validation is the process of evaluating reliability for 3-dimensional atomic models of large biological molecules such as proteins and nucleic acids.
  • Cystine knot
    A cystine knot is a protein structural motif containing three disulfide bridges (formed from pairs of cysteine residues).
  • ModBase
    ModBase is developed in the laboratory of Andrej Sali at UCSF.
  • X-ray crystallography
    X-ray crystallography is a tool used for identifying the atomic and molecular structure of a crystal, in which the crystalline atoms cause a beam of incident X-rays to diffract into many specific directions.
  • 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.
  • Circular dichroism
    Circular dichroism (CD) is dichroism involving circularly polarized light, i.
  • Conformational dynamics data bank
    Analysis is carried out by coarse-grained computation of the structures present in the electron microscopy data bank (EMDB).
  • Conformational entropy
    Conformational entropy is the entropy associated with the number of conformations of a molecule.
    SHIFTCOR (Shift Correction) is a freely available web server as well as a stand-alone computer program for protein chemical shift re-referencing.
  • Arthur M. Lesk
    Arthur Mallay Lesk, is a protein science researcher, who is a professor of biochemistry and molecular biology at the Pennsylvania State University in University Park.
  • CATH database
    The name CATH is an acronym of the four main levels in the classification.
  • Conserved Domain Database
    The Conserved Domain Database (CDD) is a database of well-annotated multiple sequence alignment models and derived database search models, for ancient domains and full-length proteins.
  • Database of protein conformational diversity
    The Database of protein conformational diversity (PCDB) is a database of diversity of protein tertiary structures within protein domains as determined by X-ray crystallography.