Amino acid composition analysis of secondary transport proteins fromEscherichia coliwith relation to functional classification, ligand specificity and structure

Bacterial Multidrug Efflux Transporters

(2014) Jared A. Delmar et al.   Annual Review of Biophysics

The membrane insertase YidC

(2014) Ross E. Dalbey et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

PseAAC-General: Fast Building Various Modes of General Form of Chou’s Pseudo-Amino Acid Composition for Large-Scale Protein Datasets

(2014) Pufeng Du et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

β-Lactam Selectivity of Multidrug Transporters AcrB and AcrD Resides in the Proximal Binding Pocket

(2014) Naoki Kobayashi et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Structural basis of Sec-independent membrane protein insertion by YidC

(2014) Kaoru Kumazaki et al.   NATURE

Prediction of Aptamer-Target Interacting Pairs with Pseudo-Amino Acid Composition

(2014) Bi-Qing Li et al.   PLoS One

Improving protein complex classification accuracy using amino acid composition profile

(2013) Chien-Hung Huang et al.   COMPUTERS IN BIOLOGY AND MEDICINE

Comparative Analysis of Putative Orthologues of Mitochondrial Import Motor Subunit: Pam18 and Pam16 in Plants

(2013) Xuejin Chen et al.   PLoS One

Transcriptomic and biochemical analyses identify a family of chlorhexidine efflux proteins

(2013) K. A. Hassan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Predicting Antibacterial Peptides by the Concept of Chou's Pseudo-amino Acid Composition and Machine Learning Methods

(2013) Maede Khosravian et al.   PROTEIN AND PEPTIDE LETTERS

Identification of efflux proteins using efficient radial basis function networks with position-specific scoring matrices and biochemical properties

(2013) Yu-Yen Ou et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Towards understanding promiscuity in multidrug efflux pumps

(2013) Kelvin Wong et al.   TRENDS IN BIOCHEMICAL SCIENCES

Functional classification of membrane transporters and channels based on filtered TM/non-TM amino acid composition

(2012) N. S. Schaadt et al.   BIOPOLYMERS

ProClusEnsem: Predicting membrane protein types by fusing different modes of pseudo amino acid composition

(2012) Jingyan Wang et al.   COMPUTERS IN BIOLOGY AND MEDICINE

The amino acid composition of proteins from anaerobic halophilic bacteria of the order Halanaerobiales

(2012) Rahel Elevi Bardavid et al.   EXTREMOPHILES

Antiparallel Dimers of the Small Multidrug Resistance Protein EmrE Are More Stable Than Parallel Dimers

(2012) Pilar Lloris-Garcerá et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The Mitochondrial Oxidase Assembly Protein1 (Oxa1) Insertase Forms a Membrane Pore in Lipid Bilayers

(2012) Vivien Krüger et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Predicting membrane protein types by incorporating protein topology, domains, signal peptides, and physicochemical properties into the general form of Chou’s pseudo amino acid composition

(2012) Yen-Kuang Chen et al.   JOURNAL OF THEORETICAL BIOLOGY

Identification and Analysis of the Putative Pentose Sugar Efflux Transporters in Escherichia coli

(2012) Khushnuma Koita et al.   PLoS One

Identifying GPCRs and their Types with Chou's Pseudo Amino Acid Composition: An Approach from Multi-scale Energy Representation and Position Specific Scoring Matrix

(2012) Zia-ur-Rehman et al.   PROTEIN AND PEPTIDE LETTERS

Simulations of substrate transport in the multidrug transporter EmrD

(2012) Joseph Baker et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

G-protein-coupled receptor prediction using pseudo-amino-acid composition and multiscale energy representation of different physiochemical properties

(2011) Zia ur-Rehman et al.   ANALYTICAL BIOCHEMISTRY

Prediction of transporter targets using efficient RBF networks with PSSM profiles and biochemical properties

(2011) Shu-An Chen et al.   BIOINFORMATICS

Prediction of GABAA receptor proteins using the concept of Chou's pseudo-amino acid composition and support vector machine

(2011) Hassan Mohabatkar et al.   JOURNAL OF THEORETICAL BIOLOGY

Trends in the exploitation of novel drug targets

(2011) Mathias Rask-Andersen et al.   NATURE REVIEWS DRUG DISCOVERY

Predicting Thermophilic Proteins with Pseudo Amino Acid Composition:Approached from Chaos Game Representation and Principal Component Analysis

(2011) Xiao-Lei Liu et al.   PROTEIN AND PEPTIDE LETTERS

Prediction of Thermophilic Protein with Pseudo Amino Acid Composition: An Approach from Combined Feature Selection and Reduction

(2011) De Wang et al.   PROTEIN AND PEPTIDE LETTERS

Prediction of GPCRs with Pseudo Amino Acid Composition: Employing Composite Features and Grey Incidence Degree Based Classification

(2011) Zia-ur-Rehman et al.   PROTEIN AND PEPTIDE LETTERS

Inserting membrane proteins: The YidC/Oxa1/Alb3 machinery in bacteria, mitochondria, and chloroplasts

(2010) Peng Wang et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES

Regulation and Function of Escherichia coli Sugar Efflux Transporter A (SetA) during Glucose-Phosphate Stress

(2010) Y. Sun et al.   JOURNAL OF BACTERIOLOGY

Predicting ion channels and their types by the dipeptide mode of pseudo amino acid composition

(2010) Hao Lin et al.   JOURNAL OF THEORETICAL BIOLOGY

Some remarks on protein attribute prediction and pseudo amino acid composition

(2010) Kuo-Chen Chou   JOURNAL OF THEORETICAL BIOLOGY

Prediction of G-Protein-Coupled Receptor Classes in Low Homology Using Chous Pseudo Amino Acid Composition with Approximate Entropy and Hydrophobicity Patterns

(2010) Quan Gu et al.   PROTEIN AND PEPTIDE LETTERS

Genome-wide analysis of integral membrane proteins from eubacterial, archaean, and eukaryotic organisms

(2010) Erik Wallin et al.   PROTEIN SCIENCE

Prediction of the human membrane proteome

(2010) Linn Fagerberg et al.   PROTEOMICS

Drug transport mechanism of the AcrB efflux pump

(2009) Klaas M. Pos   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Properties and identification of human protein drug targets

(2009) Tala M. Bakheet et al.   BIOINFORMATICS

Structural and functional aspects of the multidrug efflux pump AcrB

(2009) Thomas Eicher et al.   BIOLOGICAL CHEMISTRY

Normal Mode Analysis of Biomolecular Structures: Functional Mechanisms of Membrane Proteins

(2009) Ivet Bahar et al.   CHEMICAL REVIEWS

Pseudo Amino Acid Composition and its Applications in Bioinformatics, Proteomics and System Biology

(2009) Kuo-Chen Chou   Current Proteomics

Multidrug efflux pumps: the big issues

(2009) Richard Callaghan   FEBS Journal

Exploiting Amino Acid Composition for Predicting Protein-Protein Interactions

(2009) Sushmita Roy et al.   PLoS One

Structural Basis for the Aminoacid Composition of Proteins from Halophilic Archea

(2009) Xavier Tadeo et al.   PLOS BIOLOGY

A single channel for nitrate uptake, nitrite export and nitrite uptake byEscherichia coliNarU and a role for NirC in nitrite export and uptake

(2008) Wenjing Jia et al.   BIOCHEMICAL JOURNAL

Mechanisms of drug efflux and strategies to combat them: Challenging the efflux pump of Gram-negative bacteria

(2008) Jean-Marie Pagès et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

PhyloWidget: web-based visualizations for the tree of life

(2008) G. E. Jordan et al.   BIOINFORMATICS

Functional discrimination of membrane proteins using machine learning techniques

(2008) M Michael Gromiha et al.   BMC BIOINFORMATICS

Probing metal ion substrate-binding to theE. coliZitB exporter in native membranes by solid state NMR

(2008) Moazur Rahman et al.   MOLECULAR MEMBRANE BIOLOGY