Comparative genomics and functional annotation of bacterial transporters
MS Gelfand, DA Rodionov - Physics of Life Reviews, 2008 - Elsevier
Transport proteins are difficult to study experimentally, and because of that their functional
characterization trails that of enzymes. The comparative genomic analysis is a powerful …
characterization trails that of enzymes. The comparative genomic analysis is a powerful …
Combining modelling and mutagenesis studies of synaptic vesicle protein 2A to identify a series of residues involved in racetam binding
J Shi, D Anderson, BA Lynch, JG Castaigne, P Foerch… - 2011 - portlandpress.com
LEV (levetiracetam), an antiepileptic drug which possesses a unique profile in animal
models of seizure and epilepsy, has as its unique binding site in brain, SV2A (synaptic …
models of seizure and epilepsy, has as its unique binding site in brain, SV2A (synaptic …
Prediction of the burial status of transmembrane residues of helical membrane proteins
Abstract Background Helical membrane proteins (HMPs) play a crucial role in diverse
cellular processes, yet it still remains extremely difficult to determine their structures by …
cellular processes, yet it still remains extremely difficult to determine their structures by …
RHYTHM—a server to predict the orientation of transmembrane helices in channels and membrane-coils
RHYTHM is a web server that predicts buried versus exposed residues of helical membrane
proteins. Starting from a given protein sequence, secondary and tertiary structure …
proteins. Starting from a given protein sequence, secondary and tertiary structure …
On the derivation of propensity scales for predicting exposed transmembrane residues of helical membrane proteins
Helical membrane proteins (HMPs) play a crucial role in diverse physiological processes.
Given the difficulty in determining their structures by experimental techniques, it is desired to …
Given the difficulty in determining their structures by experimental techniques, it is desired to …
A sequence‐based computational model for the prediction of the solvent accessible surface area for α‐helix and β‐barrel transmembrane residues
Predicting the solvent accessible surface area (ASA) of transmembrane (TM) residues is of
great importance for experimental researchers to elucidate diverse physiological processes …
great importance for experimental researchers to elucidate diverse physiological processes …
Lipid exposure prediction enhances the inference of rotational angles of transmembrane helices
Background Since membrane protein structures are challenging to crystallize, computational
approaches are essential for elucidating the sequence-to-structure relationships. Structural …
approaches are essential for elucidating the sequence-to-structure relationships. Structural …
Structure of a protein–detergent complex: the balance between detergent cohesion and binding
J Khao, J Arce-Lopera, JN Sturgis… - European Biophysics …, 2011 - Springer
Despite the major interest in membrane proteins at functional, genomic, and therapeutic
levels, their biochemical and structural study remains challenging, as they require, among …
levels, their biochemical and structural study remains challenging, as they require, among …
Prediction of the exposure status of transmembrane beta barrel residues from protein sequence
We present BTMX (Beta barrel TransMembrane eXposure), a computational method to
predict the exposure status (ie exposed to the bilayer or hidden in the protein structure) of …
predict the exposure status (ie exposed to the bilayer or hidden in the protein structure) of …
Statistical analysis and exposure status classification of transmembrane beta barrel residues
Several computational methods exist for the identification of transmembrane beta barrel
proteins (TMBs) from sequence. Some of these methods also provide the transmembrane …
proteins (TMBs) from sequence. Some of these methods also provide the transmembrane …