Prediction of subcellular locations of proteins: Where to proceed?

Going from where to why—interpretable prediction of protein subcellular localization

(2010) Sebastian Briesemeister et al.   BIOINFORMATICS

Control of Membrane Protein Topology by a Single C-Terminal Residue

(2010) S. Seppala et al.   SCIENCE

Discovery of functional motifs in h-regions of trypanosome signal sequences

(2009) Josh Duffy et al.   BIOCHEMICAL JOURNAL

Protein subcellular localization prediction of eukaryotes using a knowledge-based approach

(2009) Hsin-Nan Lin et al.   BMC BIOINFORMATICS

Transmembrane protein topology prediction using support vector machines

(2009) Timothy Nugent et al.   BMC BIOINFORMATICS

MultiLoc2: integrating phylogeny and Gene Ontology terms improves subcellular protein localization prediction

(2009) Torsten Blum et al.   BMC BIOINFORMATICS

Architecture, function and prediction of long signal peptides

(2009) J. A. Hiss et al.   BRIEFINGS IN BIOINFORMATICS

Global Analysis of the Mitochondrial N-Proteome Identifies a Processing Peptidase Critical for Protein Stability

(2009) F.-Nora Vögtle et al.   CELL

The type VI secretion system: translocation of effectors and effector-domains

(2009) Stefan Pukatzki et al.   CURRENT OPINION IN MICROBIOLOGY

Lpx1p is a peroxisomal lipase required for normal peroxisome morphology

(2009) Sven Thoms et al.   FEBS Journal

Protein transport in organelles: Dual targeting of proteins to mitochondria and chloroplasts

(2009) Chris Carrie et al.   FEBS Journal

A Novel Endoplasmic Reticulum Export Signal

(2009) Yoshinori Tsukumo et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

SherLoc2: A High-Accuracy Hybrid Method for Predicting Subcellular Localization of Proteins

(2009) Sebastian Briesemeister et al.   JOURNAL OF PROTEOME RESEARCH

The Mitochondrial Porin, VDAC, Has Retained the Ability to Be Assembled in the Bacterial Outer Membrane

(2009) D. M. Walther et al.   MOLECULAR BIOLOGY AND EVOLUTION

Structural basis for leucine-rich nuclear export signal recognition by CRM1

(2009) Xiuhua Dong et al.   NATURE

Structure of the outer membrane complex of a type IV secretion system

(2009) Vidya Chandran et al.   NATURE

PeroxisomeDB 2.0: an integrative view of the global peroxisomal metabolome

(2009) Agatha Schlüter et al.   NUCLEIC ACIDS RESEARCH

PROSITE, a protein domain database for functional characterization and annotation

(2009) Christian J. A. Sigrist et al.   NUCLEIC ACIDS RESEARCH

The Pfam protein families database

(2009) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

The Universal Protein Resource (UniProt) in 2010

(2009)   NUCLEIC ACIDS RESEARCH

In-Depth Proteome Analysis of Arabidopsis Leaf Peroxisomes Combined with in Vivo Subcellular Targeting Verification Indicates Novel Metabolic and Regulatory Functions of Peroxisomes

(2009) S. Reumann et al.   PLANT PHYSIOLOGY

Signals in bacterial β-barrel proteins are functional in eukaryotic cells for targeting to and assembly in mitochondria

(2009) Dirk M. Walther et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Single Conserved Leucine Residue on the First Intracellular Loop Regulates ER Export of G Protein-Coupled Receptors

(2009) Matthew T. Duvernay et al.   TRAFFIC

Hitchhiking of Cu/Zn Superoxide Dismutase to Peroxisomes - Evidence for a Natural Piggyback Import Mechanism in Mammals

(2009) Markus Islinger et al.   TRAFFIC

Expanding the Definition of the Classical Bipartite Nuclear Localization Signal

(2009) Allison Lange et al.   TRAFFIC

Accurate Prediction of Secreted Substrates and Identification of a Conserved Putative Secretion Signal for Type III Secretion Systems

(2009) Ram Samudrala et al.   PLoS Pathogens

Sequence-Based Prediction of Type III Secreted Proteins

(2009) Roland Arnold et al.   PLoS Pathogens

Mechanisms of endoplasmic-reticulum export of glycine transporter-1 (GLYT1)

(2008) Enrique Fernández-Sánchez et al.   BIOCHEMICAL JOURNAL

Sorting of lysosomal proteins

(2008) Thomas Braulke et al.   BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH

Improving subcellular localization prediction using text classification and the gene ontology

(2008) A. Fyshe et al.   BIOINFORMATICS

Mitochondrial β-Barrel Proteins, an Exclusive Club?

(2008) Kenichiro Imai et al.   CELL

Dissecting Membrane Insertion of Mitochondrial β-Barrel Proteins

(2008) Stephan Kutik et al.   CELL

The type VI secretion toolkit

(2008) Eric Cascales   EMBO REPORTS

The Signal Peptide of the Mouse Mammary Tumor Virus Rem Protein Is Released from the Endoplasmic Reticulum Membrane and Accumulates in Nucleoli

(2008) Elisa Dultz et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Six Classes of Nuclear Localization Signals Specific to Different Binding Grooves of Importin α

(2008) Shunichi Kosugi et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

To flip or not to flip: lipid–protein charge interactions are a determinant of final membrane protein topology

(2008) Mikhail Bogdanov et al.   JOURNAL OF CELL BIOLOGY

Targeting of nucleus-encoded proteins to chloroplasts in plants

(2008) Paul Jarvis   NEW PHYTOLOGIST

Protein networks markedly improve prediction of subcellular localization in multiple eukaryotic species

(2008) KiYoung Lee et al.   NUCLEIC ACIDS RESEARCH

Arabidopsis Nuclear-Encoded Plastid Transit Peptides Contain Multiple Sequence Subgroups with Distinctive Chloroplast-Targeting Sequence Motifs

(2008) D. W. Lee et al.   PLANT CELL

Sorting Signals, N-Terminal Modifications and Abundance of the Chloroplast Proteome

(2008) Boris Zybailov et al.   PLoS One

Structure of the human voltage-dependent anion channel

(2008) M. Bayrhuber et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Solution Structure of the Integral Human Membrane Protein VDAC-1 in Detergent Micelles

(2008) S. Hiller et al.   SCIENCE

Nuclear Export Signal Consensus Sequences Defined Using a Localization-Based Yeast Selection System

(2008) Shunichi Kosugi et al.   TRAFFIC

The importance of the twin-arginine translocation pathway for bacterial virulence

(2008) Emmy De Buck et al.   TRENDS IN MICROBIOLOGY

Protein Translocation Across the Bacterial Cytoplasmic Membrane

(2007) Arnold J.M. Driessen et al.   Annual Review of Biochemistry