Related references
Note: Only part of the references are listed.Probing light chain mutation effects on thrombin via molecular dynamics simulations and machine learning
Jiajie Xiao et al.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS (2019)
Thrombin Exosite Maturation and Ligand Binding at ABE II Help Stabilize PAR-Binding Competent Conformation at ABE I
Ramya Billur et al.
BIOCHEMISTRY (2019)
G-Quadruplex-Forming Aptamers-Characteristics, Applications, and Perspectives
Carolina Roxo et al.
MOLECULES (2019)
Accurate Prediction of Amide Exchange in the Fast Limit Reveals Thrombin Allostery
Phineus R. L. Markwick et al.
BIOPHYSICAL JOURNAL (2019)
Direct Measurement of Through-Bond Effects in Molecular Multivalent Interactions
Xueyan Feng et al.
CHEMISTRY-A EUROPEAN JOURNAL (2019)
Na+-binding modes involved in thrombin's allosteric response as revealed by molecular dynamics simulations, correlation networks and Markov modeling
Jiajie Xiao et al.
PHYSICAL CHEMISTRY CHEMICAL PHYSICS (2019)
The intrinsic flexibility of the aptamer targeting the ribosomal protein S8 is a key factor for the molecular recognition
Ida Autiero et al.
BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS (2018)
Duplex/quadruplex oligonucleotides: Role of the duplex domain in the stabilization of a new generation of highly effective anti-thrombin aptamers
Irene Russo Krauss et al.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES (2018)
Several structural motifs cooperate in determining the highly effective anti-thrombin activity of NU172 aptamer
Romualdo Troisi et al.
NUCLEIC ACIDS RESEARCH (2018)
Molecular dynamics simulations of aptamer-binding reveal generalized allostery in thrombin
Jiajie Xiao et al.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS (2017)
Aptamers as targeted therapeutics: current potential and challenges
Jiehua Zhou et al.
NATURE REVIEWS DRUG DISCOVERY (2017)
Through-bond effects in the ternary complexes of thrombin sandwiched by two DNA aptamers
Andrea Pica et al.
NUCLEIC ACIDS RESEARCH (2017)
Mechanistic insights into thrombin's switch between slow'' and fast'' forms
Jiajie Xiao et al.
PHYSICAL CHEMISTRY CHEMICAL PHYSICS (2017)
NMR reveals a dynamic allosteric pathway in thrombin
Lindsey D. Handley et al.
SCIENTIFIC REPORTS (2017)
Exosite 2-Directed Ligands Attenuate Protein C Activation by the Thrombin-Thrombomodulin Complex
Kai Chen et al.
BIOCHEMISTRY (2017)
Different duplex/quadruplex junctions determine the properties of anti-thrombin aptamers with mixed folding
Irene Russo Krauss et al.
NUCLEIC ACIDS RESEARCH (2016)
Structural transitions during prothrombin activation: On the importance of fragment 2
Ty E. Adams et al.
BIOCHIMIE (2016)
Why Ser and Not Thr Brokers Catalysis in the Trypsin Fold
Leslie A. Pelc et al.
BIOCHEMISTRY (2015)
A family of DNA aptamers with varied duplex region length that forms complexes with thrombin and prothrombin
V. A. Spiridonova et al.
FEBS LETTERS (2015)
Aptamers Act as Activators for the Thrombin Mediated-Hydrolysis of Peptide Substrates
Xiaohong Tan et al.
CHEMBIOCHEM (2014)
Targeting the GPlbα Binding Site of Thrombin To Simultaneously Induce Dual Anticoagulant and Antiplatelet Effects
Akul Y. Mehta et al.
JOURNAL OF MEDICINAL CHEMISTRY (2014)
Duplex-quadruplex motifs in a peculiar structural organization cooperatively contribute to thrombin binding of a DNA aptamer
Irene Russo Krauss et al.
ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY (2013)
Dissecting the contribution of thrombin exosite I in the recognition of thrombin binding aptamer
Andrea Pica et al.
FEBS JOURNAL (2013)
Ligand Binding to Anion-binding Exosites Regulates Conformational Properties of Thrombin
Marina V. Malovichko et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2013)
Directly investigating the interaction between aptamers and thrombin by atomic force microscopy
Fang Jiao et al.
JOURNAL OF MOLECULAR RECOGNITION (2013)
The Dynamic Structure of Thrombin in Solution
Brian Fuglestad et al.
BIOPHYSICAL JOURNAL (2012)
DNA Aptamers for Human Thrombin with High Anticoagulant Activity Demonstrate Target- and Species-Specificity
E. Zavyalova et al.
CURRENT MEDICINAL CHEMISTRY (2012)
Investigation of the Interaction between a Bivalent Aptamer and Thrombin by AFM
Lin Ge et al.
LANGMUIR (2012)
High-resolution structures of two complexes between thrombin and thrombin-binding aptamer shed light on the role of cations in the aptamer inhibitory activity
Irene Russo Krauss et al.
NUCLEIC ACIDS RESEARCH (2012)
Measurement of Aptamer-Protein Interactions with Back-Scattering Interferometry
Ian R. Olmsted et al.
ANALYTICAL CHEMISTRY (2011)
Thrombin-aptamer recognition: a revealed ambiguity
Irene Russo Krauss et al.
NUCLEIC ACIDS RESEARCH (2011)
Crystallization and preliminary X-ray analysis of the complex of human α-thrombin with a modified thrombin-binding aptamer
Irene Russo Krauss et al.
ACTA CRYSTALLOGRAPHICA SECTION F-STRUCTURAL BIOLOGY COMMUNICATIONS (2010)
Thrombin allosteric modulation revisited: a molecular dynamics study
Hermes Luis Neubauer de Amorim et al.
JOURNAL OF MOLECULAR MODELING (2010)
Aptamers as therapeutics
Anthony D. Keefe et al.
NATURE REVIEWS DRUG DISCOVERY (2010)
The refined 1.9-Å X-ray crystal structure of d-Phe-Pro-Arg chloromethylketone-inhibited human α-thrombin: Structure analysis, overall structure, electrostatic properties, detailed active-site geometry, and structure-function relationships
Wolfram Bode et al.
PROTEIN SCIENCE (2010)
The effects of exosite occupancy on the substrate specificity of thrombin
Natasha May-Yoke Ng et al.
ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS (2009)
Biophysical Investigation of GpIbα Binding to Thrombin Anion Binding Exosite II
T. Michael Sabo et al.
BIOCHEMISTRY (2009)
Long Range Communication between Exosites 1 and 2 Modulates Thrombin Function
Nicolas S. Petrera et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2009)
Synergistic effect of aptamers that inhibit exosites 1 and 2 on thrombin
Shahid M. Nimjee et al.
RNA (2009)
Thrombin
Enrico Di Cera
MOLECULAR ASPECTS OF MEDICINE (2008)
Structural identification of the pathway of long-range communication in an allosteric enzyme
Prafull S. Gandhi et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2008)
Molecular assembly for high-performance bivalent nucleic acid inhibitor
Youngmi Kim et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2008)
Multidomain targeting generates a high-affinity thrombin-inhibiting bivalent aptamer
Jens Mueller et al.
CHEMBIOCHEM (2007)
Exosites in the substrate specificity of blood coagulation reactions
P. E. Bock et al.
JOURNAL OF THROMBOSIS AND HAEMOSTASIS (2007)
Canonical sampling through velocity rescaling
Giovanni Bussi et al.
JOURNAL OF CHEMICAL PHYSICS (2007)
Functional aptamers and aptazymes in biotechnology, diagnostics, and therapy
Michael Famulok et al.
CHEMICAL REVIEWS (2007)
Bio3d: an R package for the comparative analysis of protein structures
Barry J. Grant et al.
BIOINFORMATICS (2006)
Amide H/2H exchange reveals a mechanism of thrombin activation
Julia R. Koeppe et al.
BIOCHEMISTRY (2006)
Conformational analysis of γ′ peptide (410-427) interactions with thrombin anion binding exosite II
T. Michael Sabo et al.
BIOCHEMISTRY (2006)
GROMACS: Fast, flexible, and free
D Van der Spoel et al.
JOURNAL OF COMPUTATIONAL CHEMISTRY (2005)
Thrombomodulin tightens the thrombin active site loops to promote protein C activation
JR Koeppe et al.
BIOCHEMISTRY (2005)
Exosite-driven substrate specificity and function in coagulation
S Krishnaswamy
JOURNAL OF THROMBOSIS AND HAEMOSTASIS (2005)
Thrombomodulin allosterically modulates the activity of the anticoagulant thrombin
AR Rezaie et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2003)
Thrombomodulin enhances the reactivity of thrombin with protein C inhibitor by providing both a binding site for the serpin and allosterically modulating the activity of thrombin
LK Yang et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2003)
Binding of exosite ligands to human thrombin - Re-evaluation of allosteric linkage between thrombin exosites I and II
IM Verhamme et al.
JOURNAL OF BIOLOGICAL CHEMISTRY (2002)