Structural characterization of semen coagulum-derived SEM1(86-107) amyloid fibrils that enhance HIV-1 infection.

PubWeight™: 0.79‹?›

🔗 View Article (PMC 4039337)

Published in Biochemistry on May 12, 2014

Authors

Kinsley C French1, Nadia R Roan, George I Makhatadze

Author Affiliations

1: Department of Biological Sciences and Center for Biotechnology and Interdisciplinary Studies, Rensselaer Polytechnic Institute , Troy, New York 12180, United States.

Articles cited by this

Protein misfolding, functional amyloid, and human disease. Annu Rev Biochem (2006) 22.87

Hydrogen exchange and structural dynamics of proteins and nucleic acids. Q Rev Biophys (1983) 9.14

Sexual transmission of HIV. N Engl J Med (1997) 6.84

Measurement of protein by spectrophotometry at 205 nm. Anal Biochem (1974) 6.04

Calculation of protein conformation from circular dichroism. Methods Enzymol (1986) 5.68

Amyloid fibrils of the HET-s(218-289) prion form a beta solenoid with a triangular hydrophobic core. Science (2008) 5.55

Semen-derived amyloid fibrils drastically enhance HIV infection. Cell (2007) 5.23

The amyloid state of proteins in human diseases. Cell (2012) 4.53

Fluorometric determination of amyloid fibrils in vitro using the fluorescent dye, thioflavin T1. Anal Biochem (1989) 4.43

Bacterial vaginosis and HIV acquisition: a meta-analysis of published studies. AIDS (2008) 4.21

Identifying the amylome, proteins capable of forming amyloid-like fibrils. Proc Natl Acad Sci U S A (2010) 3.50

AGGRESCAN: a server for the prediction and evaluation of "hot spots" of aggregation in polypeptides. BMC Bioinformatics (2007) 3.02

Hydroxyl radical-mediated modification of proteins as probes for structural proteomics. Chem Rev (2007) 2.91

Exploring the sequence determinants of amyloid structure using position-specific scoring matrices. Nat Methods (2010) 2.74

Structural organization of alpha-synuclein fibrils studied by site-directed spin labeling. J Biol Chem (2003) 2.65

Mechanisms and uses of hydrogen exchange. Curr Opin Struct Biol (1996) 2.48

The cationic properties of SEVI underlie its ability to enhance human immunodeficiency virus infection. J Virol (2008) 2.38

Laser flash photolysis of hydrogen peroxide to oxidize protein solvent-accessible residues on the microsecond timescale. J Am Soc Mass Spectrom (2005) 2.28

Beta-sheet core of human prion protein amyloid fibrils as determined by hydrogen/deuterium exchange. Proc Natl Acad Sci U S A (2007) 2.14

Radiolytic protein footprinting with mass spectrometry to probe the structure of macromolecular complexes. Annu Rev Biophys Biomol Struct (2006) 2.14

A review of the physical and chemical properties of human semen and the formulation of a semen simulant. J Androl (2005) 2.07

Nanosecond laser-induced photochemical oxidation method for protein surface mapping with mass spectrometry. Anal Chem (2005) 1.91

Template-assisted filament growth by parallel stacking of tau. Proc Natl Acad Sci U S A (2004) 1.89

The main green tea polyphenol epigallocatechin-3-gallate counteracts semen-mediated enhancement of HIV infection. Proc Natl Acad Sci U S A (2009) 1.77

The PASTA server for protein aggregation prediction. Protein Eng Des Sel (2007) 1.76

Peptides released by physiological cleavage of semen coagulum proteins form amyloids that enhance HIV infection. Cell Host Microbe (2011) 1.72

Semen-mediated enhancement of HIV infection is donor-dependent and correlates with the levels of SEVI. Retrovirology (2010) 1.70

Fast photochemical oxidation of protein footprints faster than protein unfolding. Anal Chem (2009) 1.69

In vivo semen-associated pH neutralization of cervicovaginal secretions. Clin Diagn Lab Immunol (1997) 1.69

Structure and properties of alpha-synuclein and other amyloids determined at the amino acid level. Proc Natl Acad Sci U S A (2005) 1.65

A model for Ure2p prion filaments and other amyloids: the parallel superpleated beta-structure. Proc Natl Acad Sci U S A (2004) 1.62

Prediction of tight turns and their types in proteins. Anal Biochem (2000) 1.57

The parallel superpleated beta-structure as a model for amyloid fibrils of human amylin. J Mol Biol (2005) 1.56

Seminal vesicle-secreted proteins and their reactions during gelation and liquefaction of human semen. J Clin Invest (1987) 1.55

Semenogelin, the predominant protein in human semen. Primary structure and identification of closely related proteins in the male accessory sex glands and on the spermatozoa. J Biol Chem (1989) 1.49

ExMS: data analysis for HX-MS experiments. J Am Soc Mass Spectrom (2011) 1.44

Naturally occurring fragments from two distinct regions of the prostatic acid phosphatase form amyloidogenic enhancers of HIV infection. J Virol (2011) 1.42

A set of constructed type spectra for the practical estimation of peptide secondary structure from circular dichroism. Anal Biochem (1997) 1.40

Beta arcades: recurring motifs in naturally occurring and disease-related amyloid fibrils. FASEB J (2009) 1.37

Quantifying protein interface footprinting by hydroxyl radical oxidation and molecular dynamics simulation: application to galectin-1. J Am Soc Mass Spectrom (2008) 1.36

Stepwise protein folding at near amino acid resolution by hydrogen exchange and mass spectrometry. Proc Natl Acad Sci U S A (2013) 1.34

Analysis of protein solvent accessible surfaces by photochemical oxidation and mass spectrometry. Anal Chem (2004) 1.33

Amyloid-binding small molecules efficiently block SEVI (semen-derived enhancer of virus infection)- and semen-mediated enhancement of HIV-1 infection. J Biol Chem (2010) 1.26

Semenogelin I: a coagulum forming, multifunctional seminal vesicle protein. Cell Mol Life Sci (1999) 1.22

Prediction of amyloid fibril-forming segments based on a support vector machine. BMC Bioinformatics (2009) 1.16

Seeding-dependent propagation and maturation of amyloid fibril conformation. J Mol Biol (2005) 1.15

Mechanism of fibril formation by a 39-residue peptide (PAPf39) from human prostatic acidic phosphatase. Biochemistry (2009) 1.09

Direct visualization of HIV-enhancing endogenous amyloid fibrils in human semen. Nat Commun (2014) 1.08

Standard conformations of beta-arches in beta-solenoid proteins. J Mol Biol (2006) 1.08

The sequences appended to the amyloid core region of the HET-s prion protein determine higher-order aggregate organization in vivo. J Cell Sci (2004) 1.08

Vaginal pH neutralization by semen as a cofactor of HIV transmission. Clin Microbiol Infect (1997) 1.07

Hydrogen/deuterium exchange mass spectrometry--a window into amyloid structure. Acc Chem Res (2006) 1.07

Minimizing back exchange in the hydrogen exchange-mass spectrometry experiment. J Am Soc Mass Spectrom (2012) 1.05

Probing the cross-beta core structure of amyloid fibrils by hydrogen-deuterium exchange deep ultraviolet resonance Raman spectroscopy. J Am Chem Soc (2007) 1.04

Fast photochemical oxidation of proteins and mass spectrometry follow submillisecond protein folding at the amino-acid level. J Am Chem Soc (2012) 1.04

Structural mass spectrometry of proteins using hydroxyl radical based protein footprinting. Anal Chem (2011) 1.03

A method for probing the mutational landscape of amyloid structure. Bioinformatics (2011) 1.01

Structural dependence of HET-s amyloid fibril infectivity assessed by cryoelectron microscopy. Proc Natl Acad Sci U S A (2011) 0.99

The role of semen in sexual transmission of HIV: beyond a carrier for virus particles. Microbes Infect (2011) 0.98

Quantification of seminal plasma motility inhibitor/semenogelin in human seminal plasma. J Androl (2003) 0.98

Semenogelin, the main protein of the human semen coagulum, regulates sperm function. Semin Thromb Hemost (2007) 0.97

Physiological roles of semenogelin I and zinc in sperm motility and semen coagulation on ejaculation in humans. Mol Hum Reprod (2008) 0.95

Protein hydrogen exchange at residue resolution by proteolytic fragmentation mass spectrometry analysis. Proc Natl Acad Sci U S A (2013) 0.93

Aliphatic peptidyl hydroperoxides as a source of secondary oxidation in hydroxyl radical protein footprinting. J Am Soc Mass Spectrom (2009) 0.92

Core sequence of PAPf39 amyloid fibrils and mechanism of pH-dependent fibril formation: the role of monomer conformation. Biochemistry (2012) 0.92

Burial of the polymorphic residue 129 in amyloid fibrils of prion stop mutants. J Biol Chem (2012) 0.89

Liquefaction of semen generates and later degrades a conserved semenogelin peptide that enhances HIV infection. J Virol (2014) 0.89

A twisted four-sheeted model for an amyloid fibril. Structure (2005) 0.88

Conformational analysis of therapeutic proteins by hydroxyl radical protein footprinting. AAPS J (2012) 0.87

Seminal plasma and semen amyloids enhance cytomegalovirus infection in cell culture. J Virol (2013) 0.86

Probing the conformation of a prion protein fibril with hydrogen exchange. J Biol Chem (2010) 0.85

Disulfide bond formation significantly accelerates the assembly of Ure2p fibrils because of the proximity of a potential amyloid stretch. J Biol Chem (2009) 0.82

Differences in aggregation properties of three site-specific mutants of recombinant human stefin B. Protein Sci (2004) 0.81

Articles by these authors

Semen-mediated enhancement of HIV infection is donor-dependent and correlates with the levels of SEVI. Retrovirology (2010) 1.70

Protein stability and surface electrostatics: a charged relationship. Biochemistry (2006) 1.70

Dissecting the energetics of protein alpha-helix C-cap termination through chemical protein synthesis. Nat Chem Biol (2006) 1.68

The enthalpy of the alanine peptide helix measured by isothermal titration calorimetry using metal-binding to induce helix formation. Proc Natl Acad Sci U S A (2002) 1.47

Discovery of CD8+ T cell epitopes in Chlamydia trachomatis infection through use of caged class I MHC tetramers. Proc Natl Acad Sci U S A (2008) 1.43

Naturally occurring fragments from two distinct regions of the prostatic acid phosphatase form amyloidogenic enhancers of HIV infection. J Virol (2011) 1.42

Rational stabilization of enzymes by computational redesign of surface charge-charge interactions. Proc Natl Acad Sci U S A (2009) 1.27

Unfolding thermodynamics of Trp-cage, a 20 residue miniprotein, studied by differential scanning calorimetry and circular dichroism spectroscopy. Biochemistry (2007) 1.24

Peptide nanofibrils boost retroviral gene transfer and provide a rapid means for concentrating viruses. Nat Nanotechnol (2013) 1.12

Enthalpy of helix-coil transition: missing link in rationalizing the thermodynamics of helix-forming propensities of the amino acid residues. Proc Natl Acad Sci U S A (2005) 1.11

Conquering sexually transmitted diseases. Nat Rev Immunol (2008) 1.10

Temperature dependence of the thermodynamics of helix-coil transition. J Mol Biol (2004) 1.10

Mechanism of fibril formation by a 39-residue peptide (PAPf39) from human prostatic acidic phosphatase. Biochemistry (2009) 1.09

Thermodynamic consequences of burial of polar and non-polar amino acid residues in the protein interior. J Mol Biol (2002) 1.08

T cell responses in the absence of IFN-gamma exacerbate uterine infection with Chlamydia trachomatis. J Immunol (2009) 1.07

Removal of surface charge-charge interactions from ubiquitin leaves the protein folded and very stable. Protein Sci (2002) 1.06

Spt10-dependent transcriptional activation in Saccharomyces cerevisiae requires both the Spt10 acetyltransferase domain and Spt21. Mol Cell Biol (2004) 1.03

Role of the charge-charge interactions in defining stability and halophilicity of the CspB proteins. J Mol Biol (2006) 1.02

Computational design of the Fyn SH3 domain with increased stability through optimization of surface charge charge interactions. Protein Sci (2007) 1.01

Total chemical synthesis and X-ray crystal structure of a protein diastereomer: [D-Gln 35]ubiquitin. Angew Chem Int Ed Engl (2005) 0.99

The Listeria monocytogenes lemA gene product is not required for intracellular infection or to activate fMIGWII-specific T cells. Infect Immun (2003) 0.97

Seminal plasma induces global transcriptomic changes associated with cell migration, proliferation and viability in endometrial epithelial cells and stromal fibroblasts. Hum Reprod (2014) 0.97

Thermodynamics of the Trp-cage miniprotein unfolding in urea. Proteins (2010) 0.96

Structural basis for putrescine activation of human S-adenosylmethionine decarboxylase. Biochemistry (2008) 0.95

Protein stabilization by the rational design of surface charge-charge interactions. Methods Mol Biol (2009) 0.94

Molecular mechanism for the preferential exclusion of TMAO from protein surfaces. J Phys Chem B (2012) 0.93

Core sequence of PAPf39 amyloid fibrils and mechanism of pH-dependent fibril formation: the role of monomer conformation. Biochemistry (2012) 0.92

Cooperativity of complex salt bridges. Protein Sci (2008) 0.91

How to improve nature: study of the electrostatic properties of the surface of alpha-lactalbumin. Protein Eng Des Sel (2005) 0.90

Conformational and thermodynamic properties of peptide binding to the human S100P protein. Protein Sci (2002) 0.89

Conformational dynamics and structural plasticity play critical roles in the ubiquitin recognition of a UIM domain. J Mol Biol (2010) 0.89

Differential scanning calorimetry. Methods Mol Biol (2002) 0.89

Calorimetric evidence for a two-state unfolding of the beta-hairpin peptide trpzip4. J Am Chem Soc (2006) 0.88

Effects of charge-to-alanine substitutions on the stability of ribosomal protein L30e from Thermococcus celer. Biochemistry (2005) 0.88

Statistical analysis of protein structures suggests that buried ionizable residues in proteins are hydrogen bonded or form salt bridges. Proteins (2011) 0.87

The role and specificity of the catalytic and regulatory cation-binding sites of the Na+-pumping NADH:quinone oxidoreductase from Vibrio cholerae. J Biol Chem (2011) 0.87

Annexin I and annexin II N-terminal peptides binding to S100 protein family members: specificity and thermodynamic characterization. Biochemistry (2009) 0.87

Isothermal titration calorimetry. Methods Mol Biol (2002) 0.87

Universal convergence of the specific volume changes of globular proteins upon unfolding. Biochemistry (2009) 0.87

Crystal and NMR structures of a Trp-cage mini-protein benchmark for computational fold prediction. Proc Natl Acad Sci U S A (2012) 0.86

Seminal plasma and semen amyloids enhance cytomegalovirus infection in cell culture. J Virol (2013) 0.86

A computational approach for the rational design of stable proteins and enzymes: optimization of surface charge-charge interactions. Methods Enzymol (2009) 0.86

Kinetic consequences of native state optimization of surface-exposed electrostatic interactions in the Fyn SH3 domain. Proteins (2011) 0.85

Pressure perturbation calorimetry of unfolded proteins. J Phys Chem B (2010) 0.84

Protonation/deprotonation effects on the stability of the Trp-cage miniprotein. Phys Chem Chem Phys (2011) 0.84

Hydrophobic interactions at the Ccap position of the C-capping motif of alpha-helices. J Mol Biol (2002) 0.83

Elimination of the C-cap in ubiquitin - structure, dynamics and thermodynamic consequences. Biophys Chem (2006) 0.82

Enzyme activity in the crowded milieu. PLoS One (2012) 0.82

Modulation of quaternary structure of S100 proteins by calcium ions. Biophys Chem (2010) 0.82

Energetics of charge-charge interactions between residues adjacent in sequence. Proteins (2011) 0.82

Experimental test of the thermodynamic model of protein cooperativity using temperature-induced unfolding of a Ubq-UIM fusion protein. Biochemistry (2010) 0.81

Investigation of protein binding affinity in multimodal chromatographic systems using a homologous protein library. J Chromatogr A (2009) 0.80

NMR structure of the Apo-S100P protein. J Biomol NMR (2004) 0.80

Electrostatic contribution of surface charge residues to the stability of a thermophilic protein: benchmarking experimental and predicted pKa values. PLoS One (2012) 0.79

Investigation of protein binding affinity and preferred orientations in ion exchange systems using a homologous protein library. Biotechnol Bioeng (2009) 0.79

Noncharged amino acid residues at the solvent-exposed positions in the middle and at the C terminus of the alpha-helix have the same helical propensity. Protein Sci (2003) 0.78

Use of pressure perturbation calorimetry to characterize the volumetric properties of proteins. Methods Enzymol (2009) 0.78

Backtracking due to residual structure in the unfolded state changes the folding of the third fibronectin type III domain from tenascin-C. J Phys Chem B (2013) 0.78

Bacterial expression and purification of the amyloidogenic peptide PAPf39 for multidimensional NMR spectroscopy. Protein Expr Purif (2013) 0.78

Equilibrium and kinetic studies of protein cooperativity using urea-induced folding/unfolding of a Ubq-UIM fusion protein. Biophys Chem (2011) 0.77

Thermodynamic and kinetic analysis of peptides derived from CapZ, NDR, p53, HDM2, and HDM4 binding to human S100B. Biochemistry (2012) 0.77

Amino acid substitutions affecting protein dynamics in eglin C do not affect heat capacity change upon unfolding. Proteins (2006) 0.77

Novel interactions of the TRTK12 peptide with S100 protein family members: specificity and thermodynamic characterization. Biochemistry (2013) 0.77

Molecular determinants of expansivity of native globular proteins: a pressure perturbation calorimetry study. J Phys Chem B (2014) 0.77

The role of cross-chain ionic interactions for the stability of collagen model peptides. Biophys J (2013) 0.77

[Role of semen-derived amyloid fibrils as facilitators of HIV infection]. Med Sci (Paris) (2012) 0.76

Developmental regulation of Chlamydia trachomatis class I accessible protein-1, a CD8+ T cell antigen. J Infect Dis (2006) 0.76

Comparison of the effect of semen from HIV-infected and uninfected men on CD4+ T-cell infection. AIDS (2016) 0.75

Structural and thermodynamic characterization of the recognition of the S100-binding peptides TRTK12 and p53 by calmodulin. Protein Sci (2014) 0.75

Advances in the analysis of conformational transitions in peptides using differential scanning calorimetry. Methods Mol Biol (2007) 0.75

Both helical propensity and side-chain hydrophobicity at a partially exposed site in alpha-helix contribute to the thermodynamic stability of ubiquitin. Proteins (2005) 0.75

Molecular Determinants of Temperature Dependence of Protein Volume Change upon Unfolding. J Phys Chem B (2017) 0.75

Alterations of Nonconserved Residues Affect Protein Stability and Folding Dynamics through Charge-Charge Interactions. J Phys Chem B (2015) 0.75