Protein Science

Cover image for Vol. 23 Issue 11

Edited By: Brian W. Matthews

Impact Factor: 2.861

ISI Journal Citation Reports © Ranking: 2013: 146/291 (Biochemistry & Molecular Biology)

Online ISSN: 1469-896X

Featured

  • Conformational plasticity of the Ebola virus matrix protein

    Conformational plasticity of the Ebola virus matrix protein

    Octamer structure of the VP40 NTD bound the short RNA 5′-UGA-3′. (A) Full length VP40 can be destabilized to bind RNA in an octameric conformation mediated by the NTD (pdb code1H2C). An interactive view is available in the electronic version of the article.(B) Close-up of the sequence-specific RNA recognition (C) The N-terminal region of the VP40 NTD as well as the CTD need to dissociate from the core to facilitate octamer formation. The CTDs are connected by a long flexible linker allowing a more or less random positioning in solution (black arrows in A indicate their position).

  • Trypsinogen activation as observed in accelerated molecular dynamics simulations

    Trypsinogen activation as observed in accelerated molecular dynamics simulations

    (a) Distance between Cα of Leu119 and Ile16 of N-terminal tail during MD (left panel) or aMD (right panel) simulations, starting from the trypsinogen-like (black and grey), or trypsin (green) conformations. (b) Initial and final snapshot of an aMD simulation where the insertion was observed. The N-terminal tail of trypsinogen is superimposed as a reference and shown in a ghost representation.

  • Dynameomics: Data-driven methods and models for utilizing large-scale protein structure repositories for improving fragment-based loop prediction

    Dynameomics: Data‐driven methods and models for utilizing large‐scale protein structure repositories for improving fragment‐based loop prediction

    Comparison of structural coverage between fragments generated from crystal structures, NMR structures, and Dynameomics structures. We show the DYNall library here because fragments from both native-state and unfolding simulations provide informative conformations for loop predictions. The colors in the chart correspond to the Venn diagram on the right. The magenta area corresponds to the percentage of histogram bins that are shared between the PDBnmr and DYNall fragment libraries, but do not contain representatives from the PDBxtal fragment library.

  • NMR characterization of the conformational fluctuations of the human lymphocyte function-associated antigen-1 I-domain

    NMR characterization of the conformational fluctuations of the human lymphocyte function‐associated antigen‐1 I‐domain

    Q-factor calculated for different states and different groups of residues of the LFA-1 I-domain. The closed apo-state is represented as an ensemble of available crystallographic structures of the apo-I-domain and as an ensemble of the models from the NMR structure PDB ID: 1DGQ. The closed inhibitor-bound, intermediate, and open active states are represented by ensembles of relevant structures from PDB.

  • Recombinant expression, purification, and biophysical characterization of the transmembrane and membrane proximal domains of HIV-1 gp41

    Recombinant expression, purification, and biophysical characterization of the transmembrane and membrane proximal domains of HIV‐1 gp41

    A: Construction of the expression vector for pMistic-MPR-TMTEV-6His. See text and Supporting Information for details. B: Scheme of the Mistic-MPR-TMTEV-6His fusion protein. C: Amino acid sequence of Mistic-MPR-TMTEV-6His. Purple: His-tag; Green: Mistic; red: MPR-TM; underlined ELDKWA: the mAb 2F5 core epitope; underlined NWFDI: the 4E10 mAb core epitope; blue: TEV recognition sites. Note that the cleavage occurred between Q and G residues of the TEV recognition sequence ENLYFQG.

  • Iron inhibits Escherichia coli topoisomerase I activity by targeting the first two zinc-binding sites in the C-terminal domain

    Iron inhibits Escherichia coli topoisomerase I activity by targeting the first two zinc‐binding sites in the C‐terminal domain

    The in vitro activity of E. coli TopA mutant proteins. (A) Topoisomerase activity of purified zinc bound E. coli TopA and TopA mutant proteins. Wide-type E. coli TopA and TopA mutant proteins were purified from E. coli cells grown in the M9 minimal medium supplemented with 50 μM ZnSO4, and used for the topoisomerase activity assay. (B) Topoisomerase activity of iron bound purified E. coli TopA and TopA mutant proteins. Wide-type E. coli TopA and TopA mutant proteins were purified from E. coli cells grown in the M9 minimal medium supplemented with 50 μM ferric citrate. Two protein concentrations (200 and 400 nM) were used for the enzyme activity analyses. The results were representatives from three independent experiments.

  • High-resolution crystal structures of the photoreceptor glyceraldehyde 3-phosphate dehydrogenase (GAPDH) with three and four-bound NAD molecules

    High‐resolution crystal structures of the photoreceptor glyceraldehyde 3‐phosphate dehydrogenase (GAPDH) with three and four‐bound NAD molecules

    Carbon trace representations of bovine GAPDH tetramer structures. A. Structural model of bGAPDH(NAD)3. The NAD-free subunit named as “O” is shown in yellow. B. Structural model of bGAPDH(NAD)4. This view is down the P axis. Lines show the location of the Q and R twofold molecular axes. NAD cofactors are displayed in spheres. Subunit nomenclature and coloring is as described in Ref. (26). An interactive view is available in the electronic version of the article.

  • Conformational plasticity of the Ebola virus matrix protein
  • Trypsinogen activation as observed in accelerated molecular dynamics simulations
  • Dynameomics: Data‐driven methods and models for utilizing large‐scale protein structure repositories for improving fragment‐based loop prediction
  • NMR characterization of the conformational fluctuations of the human lymphocyte function‐associated antigen‐1 I‐domain
  • Recombinant expression, purification, and biophysical characterization of the transmembrane and membrane proximal domains of HIV‐1 gp41
  • Iron inhibits Escherichia coli topoisomerase I activity by targeting the first two zinc‐binding sites in the C‐terminal domain
  • High‐resolution crystal structures of the photoreceptor glyceraldehyde 3‐phosphate dehydrogenase (GAPDH) with three and four‐bound NAD molecules

Recently Published Issues

See all

Recently Published Articles

Interactive Figures

Learn More

PROTEINS Imolecules

Welcome to Wiley Online Library

Watch More Videos

Protein Science










Protein Science Video Highlight

Video Highlight from Karolina A. Majorek and Wladek Minor on their recently published Protein Science paper entitled "Double trouble—Buffer selection and His-tag presence may be responsible for nonreproducibility of biomedical experiments" Read the paper here

Watch More Videos

News

symposium 2014




Virtual Issue Celebrating the 28th Annual Protein Society Symposium

Edited by Amy E. Keating

This new virtual issue brings together a collection of recent papers representing core areas of research featured at the 2014 symposium and of particular interest to society members: Protein Stability, Protein Evolution, Membranes and Proteins, and Proteins in Disease and Therapeutics.

Click here to read more




New Associate Editor

PROTEIN Ipad
















Please join us in welcoming Yigong Shi as Associate Editor of Protein Science.

Click here to read more

Free Protein Science iPhone & iPad App!

PROTEIN Ipad

SEARCH

SEARCH BY CITATION