TY - JOUR
T1 - Representation of the Protein Universe using Classifications, Maps, and Networks
AU - Ben-Tal, Nir
AU - Kolodny, Rachel
PY - 2014/8/1
Y1 - 2014/8/1
N2 - A meaningful and coherent global picture of the protein universe is needed to better understand protein evolution and the underlying biophysics. We survey the studies that tackled this fundamental challenge, providing a glimpse of the protein space. A global picture represents all known local relationships among proteins, and needs to do so in a comprehensive and accurate manner. Three types of global representations can be used: classifications, maps, and networks. In these, the local relationships are derived, based on the similarity of the proteins' sequences, structures, or functions (or a combination of these). Alternatively, the local relationships can be co-occurrences of elements in the protein universe. The representations can be based on different objects: full polypeptide chains, fragments, such as structural domains, or even smaller motifs. Different protein qualities were revealed in each study; many point out the uniqueness of domains of the alpha/beta SCOP (structural classification of proteins) class.
AB - A meaningful and coherent global picture of the protein universe is needed to better understand protein evolution and the underlying biophysics. We survey the studies that tackled this fundamental challenge, providing a glimpse of the protein space. A global picture represents all known local relationships among proteins, and needs to do so in a comprehensive and accurate manner. Three types of global representations can be used: classifications, maps, and networks. In these, the local relationships are derived, based on the similarity of the proteins' sequences, structures, or functions (or a combination of these). Alternatively, the local relationships can be co-occurrences of elements in the protein universe. The representations can be based on different objects: full polypeptide chains, fragments, such as structural domains, or even smaller motifs. Different protein qualities were revealed in each study; many point out the uniqueness of domains of the alpha/beta SCOP (structural classification of proteins) class.
U2 - 10.1002/ijch.201400001
DO - 10.1002/ijch.201400001
M3 - ???researchoutput.researchoutputtypes.contributiontojournal.article???
SN - 0021-2148
VL - 54
SP - 1286
EP - 1292
JO - Israel Journal of Chemistry
JF - Israel Journal of Chemistry
IS - 8-9, SI
ER -