Insights into the phosphoryl transfer catalyzed by cAMP-dependent protein kinase: an X-ray crystallographic study of complexes with various metals and peptide substrate SP20.

PubWeight™: 0.82‹?›

🔗 View Article (PMC 3666212)

Published in Biochemistry on May 14, 2013

Authors

Oksana Gerlits1, Mary Jo Waltman, Susan Taylor, Paul Langan, Andrey Kovalevsky

Author Affiliations

1: Bioscience Division, Los Alamos National Laboratory , Los Alamos, New Mexico 87544, United States.

Articles cited by this

A short history of SHELX. Acta Crystallogr A (2007) 7339.18

Features and development of Coot. Acta Crystallogr D Biol Crystallogr (2010) 89.46

HKL-3000: the integration of data reduction and structure solution--from diffraction images to an initial model in minutes. Acta Crystallogr D Biol Crystallogr (2006) 13.29

Version 1.2 of the Crystallography and NMR system. Nat Protoc (2007) 13.01

Rational scanning mutagenesis of a protein kinase identifies functional regions involved in catalysis and substrate interactions. J Biol Chem (1991) 3.93

Kinetic and catalytic mechanisms of protein kinases. Chem Rev (2001) 3.80

Dynamics of cAMP-dependent protein kinase. Chem Rev (2001) 3.18

cAMP-dependent protein kinase: crystallographic insights into substrate recognition and phosphotransfer. Protein Sci (1994) 2.62

Adenosine cyclic 3',5'-monophosphate dependent protein kinase: kinetic mechanism for the bovine skeletal muscle catalytic subunit. Biochemistry (1982) 2.37

Crystal structure of a transition state mimic of the catalytic subunit of cAMP-dependent protein kinase. Nat Struct Biol (2002) 2.07

Mapping the transition state for ATP hydrolysis: implications for enzymatic catalysis. Chem Biol (1995) 1.70

Dynamically committed, uncommitted, and quenched states encoded in protein kinase A revealed by NMR spectroscopy. Proc Natl Acad Sci U S A (2011) 1.65

How does the cAMP-dependent protein kinase catalyze the phosphorylation reaction: an ab initio QM/MM study. J Am Chem Soc (2005) 1.51

Domain movements in protein kinases. Curr Opin Struct Biol (1994) 1.47

Pre-steady-state kinetic analysis of cAMP-dependent protein kinase using rapid quench flow techniques. Biochemistry (1996) 1.41

Structure and allostery of the PKA RIIβ tetrameric holoenzyme. Science (2012) 1.35

Physiological inhibitors of the catalytic subunit of cAMP-dependent protein kinase: effect of MgATP on protein-protein interactions. Biochemistry (1993) 1.33

Dissection of the nucleotide and metal-phosphate binding sites in cAMP-dependent protein kinase. Biochemistry (1999) 1.29

Identification of a partially rate-determining step in the catalytic mechanism of cAMP-dependent protein kinase: a transient kinetic study using stopped-flow fluorescence spectroscopy. Biochemistry (1997) 1.27

The role of the putative catalytic base in the phosphoryl transfer reaction in a protein kinase: first-principles calculations. J Am Chem Soc (2003) 1.26

Serine-53 at the tip of the glycine-rich loop of cAMP-dependent protein kinase: role in catalysis, P-site specificity, and interaction with inhibitors. Biochemistry (2000) 1.23

Divalent metal ions influence catalysis and active-site accessibility in the cAMP-dependent protein kinase. Protein Sci (1993) 1.19

Is there a catalytic base in the active site of cAMP-dependent protein kinase? Biochemistry (1997) 1.18

Chemical mechanism of the adenosine cyclic 3',5'-monophosphate dependent protein kinase from pH studies. Biochemistry (1987) 1.13

Detection of conformational changes along the kinetic pathway of protein kinase A using a catalytic trapping technique. Biochemistry (1999) 1.13

Adenosine cyclic 3',5'-monophosphate dependent protein kinase: a new fluorescence displacement titration technique for characterizing the nucleotide binding site on the catalytic subunit. Biochemistry (1983) 1.11

Magnetic resonance measurements of intersubstrate distances at the active site of protein kinase using substitution-inert cobalt(III) and chromium(III) complexes of adenosine 5'-(beta, gamma-methylenetriphosphate). Biochemistry (1980) 0.98

Insights into the phosphoryl-transfer mechanism of cAMP-dependent protein kinase from quantum chemical calculations and molecular dynamics simulations. J Am Chem Soc (2004) 0.98

An ATP-linked structural change in protein kinase A precedes phosphoryl transfer under physiological magnesium concentrations. Biochemistry (1999) 0.92

Low- and room-temperature X-ray structures of protein kinase A ternary complexes shed new light on its activity. Acta Crystallogr D Biol Crystallogr (2012) 0.88

Poisson-Boltzmann model studies of molecular electrostatic properties of the cAMP-dependent protein kinase. Eur Biophys J (1999) 0.86

Conserved phosphoryl transfer mechanisms within kinase families and the role of the C8 proton of ATP in the activation of phosphoryl transfer. BMC Res Notes (2012) 0.86

A QM/MM study of the phosphoryl transfer to the Kemptide substrate catalyzed by protein kinase A. The effect of the phosphorylation state of the protein on the mechanism. Phys Chem Chem Phys (2010) 0.85

Influence of the enzyme phosphorylation state and the substrate on PKA enzyme dynamics. Biophys Chem (2011) 0.81

Articles by these authors

Regulation of protein kinases; controlling activity through activation segment conformation. Mol Cell (2004) 6.92

Generalized X-ray and neutron crystallographic analysis: more accurate and complete structures for biological macromolecules. Acta Crystallogr D Biol Crystallogr (2009) 3.69

Crystal structure and hydrogen-bonding system in cellulose Ibeta from synchrotron X-ray and neutron fiber diffraction. J Am Chem Soc (2002) 2.86

Crystal structure and hydrogen bonding system in cellulose I(alpha) from synchrotron X-ray and neutron fiber diffraction. J Am Chem Soc (2003) 2.55

Neutron crystallography: opportunities, challenges, and limitations. Curr Opin Struct Biol (2008) 2.36

Metal ion roles and the movement of hydrogen during reaction catalyzed by D-xylose isomerase: a joint x-ray and neutron diffraction study. Structure (2010) 2.20

Corynebacterium species isolated from patients with mastitis. Clin Infect Dis (2002) 2.12

Comet 81P/Wild 2 under a microscope. Science (2006) 1.83

Joint X-ray and neutron refinement with phenix.refine. Acta Crystallogr D Biol Crystallogr (2010) 1.80

Elemental compositions of comet 81P/Wild 2 samples collected by Stardust. Science (2006) 1.76

Neutron diffraction studies of Escherichia coli dihydrofolate reductase complexed with methotrexate. Proc Natl Acad Sci U S A (2006) 1.70

The treatment of melasma: a review of clinical trials. J Am Acad Dermatol (2006) 1.67

Evolutionary rescue from extinction is contingent on a lower rate of environmental change. Nature (2013) 1.53

Locating active-site hydrogen atoms in D-xylose isomerase: time-of-flight neutron diffraction. Proc Natl Acad Sci U S A (2006) 1.51

Harnessing a university to address rural health workforce shortages in Australia. Aust J Rural Health (2007) 1.42

Epidemiology and diagnostic testing for meningitis in adults as the meningococcal epidemic declined at Middlemore Hospital. N Z Med J (2015) 1.38

Rapid determination of hydrogen positions and protonation states of diisopropyl fluorophosphatase by joint neutron and X-ray diffraction refinement. Proc Natl Acad Sci U S A (2009) 1.38

Hydrogen location in stages of an enzyme-catalyzed reaction: time-of-flight neutron structure of D-xylose isomerase with bound D-xylulose. Biochemistry (2008) 1.37

The catalytic mechanism of an aspartic proteinase explored with neutron and X-ray diffraction. J Am Chem Soc (2008) 1.33

Identification of the elusive hydronium ion exchanging roles with a proton in an enzyme at lower pH values. Angew Chem Int Ed Engl (2011) 1.32

Allosteric network of cAMP-dependent protein kinase revealed by mutation of Tyr204 in the P+1 loop. J Mol Biol (2004) 1.30

Restructuring the crystalline cellulose hydrogen bond network enhances its depolymerization rate. J Am Chem Soc (2011) 1.30

Identification of a molecular target for the Yersinia protein kinase A. Mol Cell (2007) 1.29

A preliminary time-of-flight neutron diffraction study of Streptomyces rubiginosus D-xylose isomerase. Acta Crystallogr D Biol Crystallogr (2004) 1.22

Domain organization of D-AKAP2 revealed by enhanced deuterium exchange-mass spectrometry (DXMS). J Mol Biol (2002) 1.19

The fractalkine/CX3CR1 system regulates β cell function and insulin secretion. Cell (2013) 1.16

Reliability assessment and validation of the Melasma Area and Severity Index (MASI) and a new modified MASI scoring method. J Am Acad Dermatol (2010) 1.15

High-resolution neutron crystallographic studies of the hydration of the coenzyme cob(II)alamin. Acta Crystallogr D Biol Crystallogr (2011) 1.13

Preliminary time-of-flight neutron diffraction study on diisopropyl fluorophosphatase (DFPase) from Loligo vulgaris. Acta Crystallogr Sect F Struct Biol Cryst Commun (2006) 1.13

Australian national strategy for pharmacy preceptor education and support. Aust J Rural Health (2005) 1.12

Preliminary neutron and ultrahigh-resolution X-ray diffraction studies of the aspartic proteinase endothiapepsin cocrystallized with a gem-diol inhibitor. Acta Crystallogr Sect F Struct Biol Cryst Commun (2007) 1.11

Protein crystallography with spallation neutrons. J Synchrotron Radiat (2003) 1.09

RDX and TNT residues from live-fire and blow-in-place detonations. Chemosphere (2005) 1.08

Photoinduced linkage isomers of transition-metal nitrosyl compounds and related complexes. Chem Rev (2002) 1.08

The effect of deuteration on protein structure: a high-resolution comparison of hydrogenous and perdeuterated haloalkane dehalogenase. Acta Crystallogr D Biol Crystallogr (2007) 1.07

The IMAGINE instrument: first neutron protein structure and new capabilities for neutron macromolecular crystallography. Acta Crystallogr D Biol Crystallogr (2013) 1.06

Neutron structure of human carbonic anhydrase II: a hydrogen-bonded water network "switch" is observed between pH 7.8 and 10.0. Biochemistry (2011) 1.06

Macromolecular neutron crystallography at the Protein Crystallography Station (PCS). Acta Crystallogr D Biol Crystallogr (2010) 1.05

Direct observation of hydrogen atom dynamics and interactions by ultrahigh resolution neutron protein crystallography. Proc Natl Acad Sci U S A (2012) 1.03

Neutron crystallography, molecular dynamics, and quantum mechanics studies of the nature of hydrogen bonding in cellulose Ibeta. Biomacromolecules (2008) 1.01

A large 12-month extension study of an 8-week trial to evaluate the safety and efficacy of triple combination (TC) cream in melasma patients previously treated with TC cream or one of its dyads. J Drugs Dermatol (2005) 1.01

A 15-residue bifunctional element in D-AKAP1 is required for both endoplasmic reticulum and mitochondrial targeting. J Biol Chem (2002) 1.00

Ionic-liquid induced changes in cellulose structure associated with enhanced biomass hydrolysis. Biomacromolecules (2011) 1.00

Joint X-ray/neutron crystallographic study of HIV-1 protease with clinical inhibitor amprenavir: insights for drug design. J Med Chem (2013) 0.99

Reintroducing electrostatics into macromolecular crystallographic refinement: application to neutron crystallography and DNA hydration. Structure (2011) 0.98

Detection and whole genome sequence analysis of an enterovirus 68 cluster. Virol J (2013) 0.96

Preliminary joint neutron and X-ray crystallographic study of human carbonic anhydrase II. Acta Crystallogr Sect F Struct Biol Cryst Commun (2009) 0.96

Evaluation of the national pharmacy preceptor education program. Aust J Rural Health (2007) 0.95

Inorganic pyrophosphatase crystals from Thermococcus thioreducens for X-ray and neutron diffraction. Acta Crystallogr Sect F Struct Biol Cryst Commun (2012) 0.95

Protein structures by spallation neutron crystallography. J Synchrotron Radiat (2008) 0.94

Conformational flexibility of soluble cellulose oligomers: chain length and temperature dependence. J Am Chem Soc (2009) 0.94

Patient outcomes following an intervention involving community pharmacists in the management of depression. Aust J Rural Health (2006) 0.93

An evaluation of a community pharmacy-based rural asthma management service. Aust J Rural Health (2008) 0.93

X-ray structure of perdeuterated diisopropyl fluorophosphatase (DFPase): perdeuteration of proteins for neutron diffraction. Acta Crystallogr Sect F Struct Biol Cryst Commun (2010) 0.93

Facial Soft-Tissue Fillers conference: Assessing the State of the Science. J Am Acad Dermatol (2011) 0.92

Direct determination of protonation states of histidine residues in a 2 A neutron structure of deoxy-human normal adult hemoglobin and implications for the Bohr effect. J Mol Biol (2010) 0.90

Current Understanding of Seborrheic Keratosis: Prevalence, Etiology, Clinical Presentation, Diagnosis, and Management. J Drugs Dermatol (2015) 0.90

Reversible swelling of the cell wall of poplar biomass by ionic liquid at room temperature. Bioresour Technol (2010) 0.89

Invasive group A streptococcal infection and vaccine implications, Auckland, New Zealand. Emerg Infect Dis (2011) 0.89

Low- and room-temperature X-ray structures of protein kinase A ternary complexes shed new light on its activity. Acta Crystallogr D Biol Crystallogr (2012) 0.88

W3Y single mutant of rubredoxin from Pyrococcus furiosus: a preliminary time-of-flight neutron study. Acta Crystallogr D Biol Crystallogr (2003) 0.88

Periodic disorder along ramie cellulose microfibrils. Biomacromolecules (2003) 0.85

X-ray structure of the ternary MTX.NADPH complex of the anthrax dihydrofolate reductase: a pharmacophore for dual-site inhibitor design. J Struct Biol (2009) 0.84

Neutron structure and mechanistic studies of diisopropyl fluorophosphatase (DFPase). Acta Crystallogr D Biol Crystallogr (2010) 0.84

Preliminary joint X-ray and neutron protein crystallographic studies of endoxylanase II from the fungus Trichoderma longibrachiatum. Acta Crystallogr Sect F Struct Biol Cryst Commun (2011) 0.84

Increasing our understanding of pigmentary disorders. J Am Acad Dermatol (2006) 0.84

X-ray crystallographic, scanning microprobe X-ray diffraction, and cross-polarized/magic angle spinning 13C NMR studies of the structure of cellulose III(II). Biomacromolecules (2009) 0.84

Hematologic safety of dapsone gel, 5%, for topical treatment of acne vulgaris. Arch Dermatol (2008) 0.84

Dapsone gel 5% for the treatment of acne vulgaris: safety and efficacy of long-term (1 year) treatment. J Drugs Dermatol (2007) 0.84

Nature and kinetic analysis of carbon-carbon bond fragmentation reactions of cation radicals derived from SET-oxidation of lignin model compounds. J Org Chem (2010) 0.83

Vibrio vulnificus necrotising fasciitis and septicaemia. N Z Med J (2002) 0.83

Preliminary neutron and X-ray crystallographic studies of equine cyanomethemoglobin. Acta Crystallogr Sect F Struct Biol Cryst Commun (2010) 0.83

Direct determination of the hydrogen bonding arrangement in anhydrous β-chitin by neutron fiber diffraction. Biomacromolecules (2011) 0.83

Skin care in ethnic populations. Semin Plast Surg (2009) 0.82

Rural pharmacist perceptions of a project assessing their role in the management of depression. Aust J Rural Health (2009) 0.82

High prevalence of CTX-M-15 extended-spectrum beta-lactamase among contacts of patients with shigellosis due to Shigella flexneri carrying CTX-M-15. J Antimicrob Chemother (2007) 0.81

Identification of the degradation determinants of insulin receptor substrate 1 for signaling cullin-RING E3 ubiquitin ligase 7-mediated ubiquitination. J Biol Chem (2012) 0.81

Time-resolved X-ray diffraction microprobe studies of the conversion of cellulose I to ethylenediamine-cellulose I. Cellulose (Lond) (2010) 0.81

A case of infection caused by the basidiomycete Phellinus undulatus. J Med Microbiol (2010) 0.81

Room-temperature ultrahigh-resolution time-of-flight neutron and X-ray diffraction studies of H/D-exchanged crambin. Acta Crystallogr Sect F Struct Biol Cryst Commun (2012) 0.81

Water in crystalline fibers of dihydrate β-chitin results in unexpected absence of intramolecular hydrogen bonding. PLoS One (2012) 0.81

Imported malaria in Auckland, New Zealand. N Z Med J (2012) 0.80

Innovative asthma health promotion by rural community pharmacists: a feasibility study. Health Promot J Austr (2005) 0.80

Looking at hydrogen bonds in cellulose. Acta Crystallogr D Biol Crystallogr (2010) 0.80

Twice-daily applications of benzoyl peroxide 5%/clindamycin 1% gel versus vehicle in the treatment of pseudofolliculitis barbae. Cutis (2004) 0.80

A coarse-grained model for synergistic action of multiple enzymes on cellulose. Biotechnol Biofuels (2012) 0.79

Coarse-grained model for the interconversion between native and liquid ammonia-treated crystalline cellulose. J Phys Chem B (2012) 0.79

Probing the early events associated with liquid ammonia pretreatment of native crystalline cellulose. J Phys Chem B (2011) 0.78

The crystal structure of mono-ethylenediamine β-chitin from synchrotron X-ray fiber diffraction. Carbohydr Polym (2012) 0.78

Metal-free cAMP-dependent protein kinase can catalyze phosphoryl transfer. Biochemistry (2014) 0.78

Influences of partners' views of asthma self-management and family environment on asthmatic adults' asthma quality of life. Appl Nurs Res (2002) 0.78

Increasing primary antibiotic resistance and ethnic differences in eradication rates of Helicobacter pylori infection in New Zealand--a new look at an old enemy. N Z Med J (2013) 0.78