Protein Contact Map of protein VPA0982 from Vibrio parahaemolyticus
A protein contact map represents the distance between all possible amino acid residue pairs of a three-dimensional protein structure using a binary two-dimensional matrix. For two residues and , the element of the matrix is 1 if the two residues are closer than a predetermined threshold, and 0 otherwise. Various contact definitions have been proposed: The distance between the Cα-Cα atom with threshold 6-12 Å; distance between Cβ-Cβ atoms with threshold 6-12 Å (Cα is used for Glycine); and distance between the side-chain centers of mass.
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A proteincontactmap represents the distance between all possible amino acid residue pairs of a three-dimensional protein structure using a binary two-dimensional...
has been used in the inference of protein residue contacts, RNA structure prediction, the inference of protein-protein interaction networks, the modeling...
associated measurements amino acid rotamer libraries, protein Ramachandran plot, proteincontactmap structure building and bond rotation molecular dynamics...
applied to proteomics problems such as protein side-chain prediction, protein loop modeling, and proteincontactmap prediction. Metagenomics is the study...
example, proteincontactmaps, positions of alpha carbon atoms only or backbone chain atoms only. There are many computational tools for protein structure...
089 MULTICOM Wei Zheng et al,Deep-learning contact-map guided protein structure prediction in CASP13, Proteins: Structure, Function, and Bioinformatics...
Activated Protein (MAP) kinase kinase kinase (MAPKKK, MKKK, M3K, or, MAP3K) is a serine/threonine-specific protein kinase which acts upon MAP kinase kinase...
of protein structure prediction software summarizes notable used software tools in protein structure prediction, including homology modeling, protein threading...
known structures and contactmaps, including the prediction of experimentally unsolved transmembrane proteins. Comparative protein modeling uses previously...
of axonal microtubules. Other nervous system microtubule-associated proteins (MAPs) may perform similar functions, as suggested by tau knockout mice that...
The Protein Data Bank (PDB) is a database for the three-dimensional structural data of large biological molecules such as proteins and nucleic acids, which...
composed of MAPs with a molecular weight of 200-1000 kDa, of which there are four known types: MAP-1, MAP-2, MAP-3 and MAP-4. MAP-1 proteins consists of...
organisms that requires close contact. There are three types: A membrane ligand (protein, oligosaccharide, lipid) and a membrane protein of two adjacent cells...
an integral ER membrane protein, is involved in ER-PM contact stabilization by interacting with PIPs in the PM. In these contact sites, voltage-gated Ca2+...
improve the contact determination. The Protein Data Bank (PDB) is a database of 3D structure data for large biological molecules, such as proteins, DNA, and...
In molecular biology, a protein domain is a region of a protein's polypeptide chain that is self-stabilizing and that folds independently from the rest...
Cholesteryl ester transfer protein (CETP), also called plasma lipid transfer protein, is a plasma protein that facilitates the transport of cholesteryl...
A ribosomal protein (r-protein or rProtein) is any of the proteins that, in conjunction with rRNA, make up the ribosomal subunits involved in the cellular...
In cell biology, protein kinase A (PKA) is a family of serine-threonine kinase whose activity is dependent on cellular levels of cyclic AMP (cAMP). PKA...
The Human Protein Atlas (HPA) is a Swedish-based program started in 2003 with the aim to map all the human proteins in cells, tissues and organs using...
insertion of nascent membrane proteins that forms transient DNA-membrane contacts. Transertion of two membrane proteins LacY and TetA has been demonstrated...
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