Protein Science

Cover image for Vol. 26 Issue 8

Edited By: Brian W. Matthews

Impact Factor: 2.523

ISI Journal Citation Reports © Ranking: 2016: 158/286 (Biochemistry & Molecular Biology)

Online ISSN: 1469-896X

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  • Trapped intermediate state of plant pyruvate phosphate dikinase indicates substeps in catalytic swiveling domain mechanism

    Trapped intermediate state of plant pyruvate phosphate dikinase indicates substeps in catalytic swiveling domain mechanism

    (A) Stereo cartoon representation of 5LU4 chain A illustrating the overall domain organization. The nucleotide binding domain (NBD, aa 1–340) and its three subdomains are colored in different greens. The PEP/pyruvate binding domain (PBD) is colored in blue (aa 534–872). The central domain (CD, yellow, aa 381–516) with the catalytic His456 (magenta, Cα shown as sphere) is attached to both substrate binding domains via two short linker helices (red, aa 341–380 and 517–533). Pyruvate and ADP bound to the PBD and NBD respectively are depicted as spheres. (B) Dimeric assembly within the asymmetric unit (ASU). The dimer is formed by contacts between the NBDs and CDs of chains A and B, colored orange and blue respectively. (C) Biological assembly as identified by the program EPPIC and reconstructed from crystal symmetry. The dimerization interface is formed by both PBDs as previously described . Individual domains are colored according to (A). An interactive view is available in the electronic version of the article

  • The structural flexibility of the human copper chaperone Atox1: Insights from combined pulsed EPR studies and computations

    The structural flexibility of the human copper chaperone Atox1: Insights from combined pulsed EPR studies and computations

    Dotted overview of the various DEER model-structures overlaid one each other.

  • Carbohydrate recognition by the rhamnose-binding lectin SUL-I with a novel three-domain structure isolated from the venom of globiferous pedicellariae of the flower sea urchin Toxopneustes pileolus

    Carbohydrate recognition by the rhamnose‐binding lectin SUL‐I with a novel three‐domain structure isolated from the venom of globiferous pedicellariae of the flower sea urchin Toxopneustes pileolus

    Interactions between the C-6 atom of l-rhamnose and the residues in the three binding sites of rSUL-I (A, B, and C) and in the N-terminal half domain of CSL3 (D) (PDB ID: 2ZX2). The van der Waals radii of l-rhamnose and the involved residues are indicated by dots.

  • Molecular dynamics simulations of early steps in RNA-mediated conversion of prions

    Molecular dynamics simulations of early steps in RNA‐mediated conversion of prions

    Difference between the frequency of backbone H-bond contacts found in the bound prion protein and the frequency of such contacts found in the unbound protein. Diagonal elements correspond to helical contacts and linear clusters orthogonal to the diagonal correspond to β strand contacts. The upper triangle shows the contact map for the human prion protein and lower triangle the map for the mouse prion protein. The helix A region is shown enlarged in the inset. [Color figure can be viewed at wileyonlinelibrary.com]

  • Lipopolysaccharide binding to the periplasmic protein LptA

    Lipopolysaccharide binding to the periplasmic protein LptA

    Overlays of X-band CW EPR spectra of spin-labeled apo LptA at the positions indicated at 2 µM (black) and 100 µM (green) protein concentration. Spectra are normalized to the same center line height and are 100 G wide.

  • Kinetic and structural changes in HsmtPheRS, induced by pathogenic mutations in human FARS2

    Kinetic and structural changes in HsmtPheRS, induced by pathogenic mutations in human FARS2

    Transitions from the active “open” (A) to inactive “closed” (B) conformations of HsmtPheRS upon complex formation with tRNAPhe are shown with the tRNAPhe molecule depicted by “worm” representation. PDB ID of the HsmtPheRS complexed with tRNAPhe is 3TUP.

  • Pilus biogenesis of Gram-positive bacteria: Roles of sortases and implications for assembly

    Pilus biogenesis of Gram‐positive bacteria: Roles of sortases and implications for assembly

    Comparison of structures of Class B sortases from (A) S. aureus (green, PDB ID: 1NG5), (B) S. pneumoniae (pink, PDB ID: 4Y4Q), and (C) C. difficile (teal, PDB ID: 4UX7) with the β6/β7 loop highlighted in blue.

  • Trapped intermediate state of plant pyruvate phosphate dikinase indicates substeps in catalytic swiveling domain mechanism
  • The structural flexibility of the human copper chaperone Atox1: Insights from combined pulsed EPR studies and computations
  • Carbohydrate recognition by the rhamnose‐binding lectin SUL‐I with a novel three‐domain structure isolated from the venom of globiferous pedicellariae of the flower sea urchin Toxopneustes pileolus
  • Molecular dynamics simulations of early steps in RNA‐mediated conversion of prions
  • Lipopolysaccharide binding to the periplasmic protein LptA
  • Kinetic and structural changes in HsmtPheRS, induced by pathogenic mutations in human FARS2
  • Pilus biogenesis of Gram‐positive bacteria: Roles of sortases and implications for assembly

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Author Shigeki Arai on his recently published Protein Science paper entitled " An insight into the thermodynamic characteristics of human thrombopoietin complexation with TN1 antibody." Read the paper here

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2017 Best Paper Award Winners
We are pleased to announce the winners of the 2017 Protein Science Best Paper Award:

Charlotte Miton
Postdoctoral Research Fellow
Michael Smith Laboratories at University of British Columbia

How mutational epistasis impairs predictability in protein evolution and design
Charlotte M. Miton and Nobuhiko Tokuriki
Protein Sci. 25:1260-1272, 2016.

Zach Schaefer
Graduate Student
Department of Biochemistry and Molecular Biology at University of Chicago

A polar ring endows improved specificity to an antibody fragment
Zachary P. Schaefer, Lucas J. Bailey and Anthony A. Kossiakoff
Protein Sci. 25:1290-1298, 2016.

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2017 Young Investigator Award Winner

The Protein Science Young Investigator Award recognizes a scientist generally within the first 8 years of an independent career who has made an important contribution to the study of proteins. The 2017 winner is Dr. David Pagliarini (University of Wisconsin, Madison).

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More information on our awards can be found here.

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