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1.
Article in English | MEDLINE | ID: mdl-38841916

ABSTRACT

BACKGROUND: Residual transprosthetic gradient (TG) after transcatheter aortic valve replacement (TAVR) with balloon-expandable valves (BEV) may be due to suboptimal valve expansion. AIMS: To compare hemodynamics after TAVR with small BEV according to postdilation strategy. METHODS: This observational, retrospective cohort study included 184 consecutive patients from a single center treated with 23 mm Sapien 3 Ultra (Edwards Lifesciences) BEV implantation in the aortic position and enrolled between January 2020 and April 2023. Patients treated with routine postdilation (RP, n = 73) were compared to patients treated according to local standard practice (SP, n = 111). Primary endpoint was 30-day mean TG. Secondary endpoints were incidence of 30-day prosthesis-patient mismatch (PPM), technical success and device success. RESULTS: Thirty-day mean TG was lower in RP versus SP (12.3 ± 4.6 mmHg vs. 14.1 ± 5.7 mmHg, p = 0.031), and incidence of PPM was less common with RP versus SP (47.3% vs. 71.0%, p = 0.006). Technical success (98.6% vs. 99.1%, p = 0.637) and device success (93.1% vs. 90.1%, p = 0.330) did not differ between groups. Differences in 30-day mean TG were driven by patients at normal flow (12.1 ± 4.0 mmHg vs. 15.0 ± 5.5 mmHg, p = 0.014), while no differences were evident among patients at low flow (12.5 ± 5.5 mmHg vs. 11.7 ± 5.5 mmHg, p = 0.644). RP decreased height and increased width of BEV, and a linear regression established that final BEV width could predict 30-day mean TG (r = -0.6654, p < 0.0001). CONCLUSIONS: RP after TAVR with small BEV was associated with more favorable forward-flow hemodynamics than SP.

4.
J Card Surg ; 37(12): 4679-4684, 2022 Dec.
Article in English | MEDLINE | ID: mdl-36321725

ABSTRACT

OBJECTIVE: Transcathether edge-to-edge mitral valve repair (TEER) has been shown to be an effective treatment for secondary mitral regurgitation (MR). However, the outcomes of TEER in patients with severe cardiomyopathy is less clear. The objective of this study is to determine the outcomes of such patients who underwent TEER at our institution. METHODS: A retrospective review of patients with severe cardiomyopathy, defined as ejection fraction ≤30% or the requirement of inotropic support preoperatively, undergoing TEER for secondary MR at our institution from 11/2016 to 11/2020 was performed. Univariate analysis associating preoperative characteristics with our primary endpoint of 1-year death or orthotopic heart transplant (OHT) was performed. Kaplan-Meier analysis was conducted for the composite outcome of death or OHT, as well as for heart failure-related readmission. Finally, an assessment of changes in MR severity from the preoperative, to immediate postoperative period, to 30-day postoperative period was conducted. RESULTS: There were 48 patients identified. Median age was 74.5 years (IQR 65.5-79.5), median ejection fraction was 21.5% (IQR 16.0-27.5), and 81.4% of patients had severe or torrential mitral regurgitation preoperatively. The composite endpoint of 1-year mortality or OHT occurred in 15 of 48 patients (31.3%, 14 deaths and 1 OHT). One-year heart failure readmission rate was 47.9%. Mortality or OHT at 2 years occurred in 45.8%. CONCLUSION: Patients at extremes of heart failure who underwent TEER had poor outcomes when assessed at 1-year. Our study may suggest that the results of cardiovascular outcomes assessment of the mitraclip percutaneous therapy for heart failure patients with secondary mitral regurgitation may not be applicable to patients with severe cardiomyopathy.


Subject(s)
Cardiomyopathies , Heart Failure , Heart Valve Prosthesis Implantation , Mitral Valve Insufficiency , Humans , Aged , Mitral Valve Insufficiency/complications , Mitral Valve/surgery , Patient Readmission , Heart Valve Prosthesis Implantation/methods , Treatment Outcome , Heart Failure/surgery , Cardiomyopathies/complications , Cardiomyopathies/surgery
5.
J Card Surg ; 36(9): 3224-3229, 2021 Sep.
Article in English | MEDLINE | ID: mdl-34110045

ABSTRACT

BACKGROUND: Cardiac interventions performed urgently are known to be associated with poor outcomes compared with electively performed procedures. Transcatheter edge-to-edge mitral valve repair (TMVr) has developed as a reasonable alternative to mitral valve surgery in certain patient populations. We aimed to leverage a national database to identify predictors of urgent versus elective TMVr, as well as the association between urgency and outcomes. METHODS: The National Inpatient Sample (NIS) was queried to identify patients who underwent TMVr from 2016 to 2017. Hospitalizations were identified within the database as elective versus nonelective. Univariate and multivariable analyses were performed to identify patient characteristics associated with urgent procedures. In-hospital outcomes were assessed. RESULTS: There were 10,195 cases of TMVr in this cohort, 24.2% of which were performed urgently. In multivariable analysis, Hispanic race, Medicaid insurance, and low income were associated with increased likelihood of urgent hospital admission and TMVr. Additionally, small hospital size and Northeast region were associated with increased likelihood of urgent admission and procedure. Urgent TMVr was associated with increased mortality (4.5% vs. 1.6%, p < .001), prolonged length of stay (6.0 vs. 2.0, p < .001), and increased cost ($71,451.90 vs. $44,981.20, p < .001). CONCLUSIONS: Racial and socioeconomic disparities exist in the utilization of TMVr as an urgent versus elective procedure, suggesting differences in access to surveillance and preventive care. Urgent TMVr is associated with increased morbidity and mortality, prolonged length of stay, and increased hospital costs. Priority should be placed on mitigating such disparities to improve outcomes.


Subject(s)
Heart Valve Prosthesis Implantation , Mitral Valve Insufficiency , Cardiac Catheterization , Humans , Inpatients , Mitral Valve/surgery , Mitral Valve Insufficiency/surgery , Socioeconomic Factors , Treatment Outcome , United States
6.
Cardiovasc Revasc Med ; 28S: 161-165, 2021 07.
Article in English | MEDLINE | ID: mdl-32798117

ABSTRACT

Pre-operative multimodality imaging has become an integral part of the planning and execution of transcatheter heart valve procedures. 3D printing of a patient-specific cardiac model is a novel addition to these procedures. This case report discusses the use of pre-operative multimodality imaging, intra-operative fusion imaging, and 3D printing as valuable adjuncts in the planning and simulation of complex structural heart procedures. We describe the case of a 44-year-old woman with prior tricuspid bioprosthetic valve replacement and mechanical mitral valve replacement who presented with dyspnea and palpitations. The patient was diagnosed with severe tricuspid bioprosthestic valve failure, was deemed high risk for surgical re-intervention, and subsequently underwent successful tricuspid valve-in-valve replacement with a SAPIEN XT valve.


Subject(s)
Cardiac Surgical Procedures , Heart Valve Prosthesis Implantation , Heart Valve Prosthesis , Adult , Cardiac Catheterization , Female , Heart Valve Prosthesis Implantation/adverse effects , Humans , Printing, Three-Dimensional , Prosthesis Design , Treatment Outcome , Tricuspid Valve/diagnostic imaging , Tricuspid Valve/surgery
7.
J Interv Cardiol ; 2020: 1807909, 2020.
Article in English | MEDLINE | ID: mdl-33149728

ABSTRACT

INTRODUCTION: Requirement of permanent pacemaker (PPM) implantation is a known and common postoperative consequence of transcatheter aortic valve replacement (TAVR). The Emory risk score has been recently developed to help risk stratify the need for PPM insertion in patients undergoing TAVR with SAPIEN 3 valves. Our aim was to assess the validity of this risk score in our patient population, as well as its applicability to patients receiving self-expanding valves. METHODS: We conducted a retrospective review of 479 TAVR patients without preoperative pacemakers from November 2016 through December 2018. Preoperative risk factors included in the Emory risk score were collected for each patient: preoperative QRS, preoperative right bundle branch block (RBBB), preoperative syncope, and degree of valve oversizing. Multivariable analysis of the individual variables within the scoring system to identify predictors of PPM placement was performed. The predictive discrimination of the risk score for the risk of PPM placement after TAVR was assessed with the area under the receiver operating characteristic curve (AUC). RESULTS: Our results demonstrated that, of the 479 patients analyzed, 236 (49.3%) received balloon-expandable valves and 243 (50.7%) received self-expanding valves. Pacemaker rates were higher in patients receiving self-expanding valves than those receiving balloon-expandable valves (25.1% versus 16.1%, p=0.018). The Emory risk score showed a moderate correlation with pacemaker requirement in patients receiving each valve type, with AUC for balloon-expandable and self-expanding valves of 0.657 and 0.645, respectively. Of the four risk score components, preoperative RBBB was the only predictor of pacemaker requirement with an AUC of 0.615 for both balloon-expandable and self-expanding valves. Conclusion. In our cohort, the Emory risk score had modest predictive utility for PPM insertion after balloon-expandable and self-expanding TAVR. The risk score did not offer better discriminatory utility than that of preoperative RBBB alone. Understanding the determinants of PPM insertion after TAVR can better guide patient education and postoperative management.


Subject(s)
Aortic Valve Stenosis/surgery , Heart Valve Prosthesis , Risk Assessment/methods , Transcatheter Aortic Valve Replacement , Aged , Aged, 80 and over , Aortic Valve/surgery , Cardiac Pacing, Artificial/methods , Female , Heart Valve Prosthesis/adverse effects , Heart Valve Prosthesis/classification , Heart Valve Prosthesis/statistics & numerical data , Humans , Male , Preoperative Period , Retrospective Studies , Risk Factors , Transcatheter Aortic Valve Replacement/adverse effects , Transcatheter Aortic Valve Replacement/instrumentation , Transcatheter Aortic Valve Replacement/methods
8.
IDCases ; 20: e00739, 2020.
Article in English | MEDLINE | ID: mdl-32154110

ABSTRACT

This report describes the case of a 44-year-old man with Streptococcus gallolyticus (formerly S. bovis) endocarditis requiring surgical mitral valve replacement who developed multifocal extracranial mycotic aneurysms after the resolution of infection.

9.
JTCVS Open ; 4: 36-42, 2020 Dec.
Article in English | MEDLINE | ID: mdl-36004296

ABSTRACT

Objectives: Heparin-induced thrombocytopenia (HIT) is an immune-mediated complication that occurs in a small percentage of patients exposed to heparin. Concerns of HIT are particularly high in patients undergoing cardiac procedures requiring cardiopulmonary bypass, as they are exposed to high doses of heparin intraoperatively. Our aim was to identify and assess the hospital courses of patients who were diagnosed with HIT during readmission following cardiac surgery. Methods: A retrospective review of patients who underwent open cardiac surgical procedures from June 2017 through October 2019 was performed. Of these, we identified patients who were newly diagnosed with HIT upon readmission. HIT positivity was defined as a positive anti-PF4 antibody screening test, plus a positive serotonin release assay. Results: Of the 2496 patients identified, 13 patients were HIT positive on index admission and were excluded. Of the remaining 2483 patients, 351 were readmitted within 30 days. Six were newly diagnosed with HIT during readmission, 5 of whom presented with thrombotic complications. One patient was readmitted with thrombocytopenia and was started on argatroban; the remaining 5 did not have a significantly lower platelet count on readmission. Of the 12 patients readmitted for venous thromboembolism, 4 tested positive for HIT. Conclusions: HIT can have a delayed appearance following open heart surgery. Venous thromboembolism appears to be a significant indicator for HIT during readmission, even in the absence of thrombocytopenia. This may support the use of non-heparin anticoagulation for cardiac surgery patients readmitted with thromboembolism until HIT status is determined.

10.
Can J Physiol Pharmacol ; 96(2): 191-199, 2018 Feb.
Article in English | MEDLINE | ID: mdl-28977772

ABSTRACT

Caffeine reliably increases emotional arousal, but it is unclear whether and how it influences other dimensions of emotion such as emotional valence. These experiments documented whether caffeine influences emotion and emotion regulation choice and success. Low to abstinent caffeine consumers (maximum 100 mg/day) completed measures of state anxiety, positive and negative emotion, and salivary cortisol before, 45 min after, and 75 min after consuming 400 mg caffeine or placebo. Participants also completed an emotion regulation choice task, in which they chose to employ cognitive reappraisal or distraction in response to high and low intensity negative pictures (Experiment 1), or a cognitive reappraisal task, in which they employed cognitive reappraisal or no emotion regulation strategy in response to negative and neutral pictures (Experiment 2). State anxiety, negative emotion, and salivary cortisol were heightened both 45 and 75 min after caffeine intake relative to placebo. In Experiment 1, caffeine did not influence the frequency with which participants chose reappraisal or distraction, but reduced negativity of the picture ratings. In Experiment 2, caffeine did not influence cognitive reappraisal success. Thus, caffeine mitigated emotional responses to negative situations, but not how participants chose to regulate such responses or the success with which they did so.


Subject(s)
Caffeine/pharmacology , Emotions/drug effects , Adult , Anxiety/psychology , Humans , Hydrocortisone/metabolism , Placebos , Saliva/metabolism , Surveys and Questionnaires , Task Performance and Analysis , Young Adult
11.
Int J Mol Sci ; 16(12): 30405-21, 2015 Dec 21.
Article in English | MEDLINE | ID: mdl-26703577

ABSTRACT

Sub-lethal doses of radiation can modulate gene expression, making tumor cells more susceptible to T-cell-mediated immune attack. Proteasome inhibitors demonstrate broad anti-tumor activity in clinical and pre-clinical cancer models. Here, we use a combination treatment of proteasome inhibition and irradiation to further induce immunomodulation of tumor cells that could enhance tumor-specific immune responses. We investigate the effects of the 26S proteasome inhibitor, bortezomib, alone or in combination with radiotherapy, on the expression of immunogenic genes in normal colon and colorectal cancer cell lines. We examined cells for changes in the expression of several death receptors (DR4, DR5 and Fas) commonly used by T cells for killing of target cells. Our results indicate that the combination treatment resulted in increased cell surface expression of death receptors by increasing their transcript levels. The combination treatment further increases the sensitivity of carcinoma cells to apoptosis through FAS and TRAIL receptors but does not change the sensitivity of normal non-malignant epithelial cells. Furthermore, the combination treatment significantly enhances tumor cell killing by tumor specific CD8⁺ T cells. This study suggests that combining radiotherapy and proteasome inhibition may simultaneously enhance tumor immunogenicity and the induction of antitumor immunity by enhancing tumor-specific T-cell activity.


Subject(s)
Antineoplastic Agents/pharmacology , Apoptosis , Bortezomib/pharmacology , CD8-Positive T-Lymphocytes/drug effects , Proteasome Inhibitors/pharmacology , Radiation, Ionizing , CD8-Positive T-Lymphocytes/metabolism , CD8-Positive T-Lymphocytes/radiation effects , Cell Line , Epithelial Cells/drug effects , Epithelial Cells/radiation effects , HCT116 Cells , Humans , Receptors, Death Domain/metabolism
12.
J Biomol Struct Dyn ; 33(2): 289-97, 2015.
Article in English | MEDLINE | ID: mdl-24558982

ABSTRACT

Selenomethionine incorporation has proven useful in X-ray crystallography of proteins to obtain phase information. In nucleic acids, the introduction of selenium to different positions is beneficial for solving the phase problem as well, but its addition to the 2' position also significantly enhances the crystal formation. The selenium modification in a single nucleotide shows a preference towards 2'-endo sugar puckering, which is in conflict with existing crystal structures where the duplex incorporated 2'-selenium-modified nucleotide is exclusively found in a 3'-endo conformation. Our work provides a rationale why 2'-selenium modifications facilitate crystallization despite this contradictory behavior.


Subject(s)
DNA/chemistry , Nucleosides/chemistry , Organoselenium Compounds/chemistry , Base Sequence , Crystallization , Crystallography, X-Ray , Molecular Dynamics Simulation , Transition Temperature
13.
PLoS One ; 9(3): e91200, 2014.
Article in English | MEDLINE | ID: mdl-24625964

ABSTRACT

Accumulating evidence shows the 26S proteasome is involved in the regulation of gene expression. We and others have demonstrated that proteasome components bind to sites of gene transcription, regulate covalent modifications to histones, and are involved in the assembly of activator complexes in mammalian cells. The mechanisms by which the proteasome influences transcription remain unclear, although prior observations suggest both proteolytic and non-proteolytic activities. Here, we define novel, non-proteolytic, roles for each of the three 19S heterodimers, represented by the 19S ATPases Sug1, S7, and S6a, in mammalian gene expression using the inflammatory gene CIITApIV. These 19S ATPases are recruited to induced CIITApIV promoters and also associate with CIITA coding regions. Additionally, these ATPases interact with elongation factor PTEFb complex members CDK9 and Hexim-1 and with Ser5 phosphorylated RNA Pol II. Both the generation of transcripts from CIITApIV and efficient recruitment of RNA Pol II to CIITApIV are negatively impacted by siRNA mediated knockdown of these 19S ATPases. Together, these results define novel roles for 19S ATPases in mammalian gene expression and indicate roles for these ATPases in promoting transcription processes.


Subject(s)
Adenosine Triphosphatases/chemistry , Nuclear Proteins/chemistry , Trans-Activators/chemistry , Transcription, Genetic , ATPases Associated with Diverse Cellular Activities , Adaptor Proteins, Signal Transducing/chemistry , Antibodies/chemistry , Gene Expression Regulation , HeLa Cells , Histones/chemistry , Humans , LIM Domain Proteins/chemistry , Proteasome Endopeptidase Complex/chemistry , Protein Structure, Tertiary , RNA Polymerase II/chemistry , RNA, Small Interfering/chemistry , Transcription Factors/chemistry
14.
J Gen Physiol ; 142(3): 241-55, 2013 Sep.
Article in English | MEDLINE | ID: mdl-23980194

ABSTRACT

Mutations in cardiac myosin binding protein C (cMyBP-C) are prevalent causes of hypertrophic cardiomyopathy (HCM). Although HCM-causing truncation mutations in cMyBP-C are well studied, the growing number of disease-related cMyBP-C missense mutations remain poorly understood. Our objective was to define the primary contractile effect and molecular disease mechanisms of the prevalent cMyBP-C E258K HCM-causing mutation in nonremodeled murine engineered cardiac tissue (mECT). Wild-type and human E258K cMyBP-C were expressed in mECT lacking endogenous mouse cMyBP-C through adenoviral-mediated gene transfer. Expression of E258K cMyBP-C did not affect cardiac cell survival and was appropriately incorporated into the cardiac sarcomere. Functionally, expression of E258K cMyBP-C caused accelerated contractile kinetics and severely compromised twitch force amplitude in mECT. Yeast two-hybrid analysis revealed that E258K cMyBP-C abolished interaction between the N terminal of cMyBP-C and myosin heavy chain sub-fragment 2 (S2). Furthermore, this mutation increased the affinity between the N terminal of cMyBP-C and actin. Assessment of phosphorylation of three serine residues in cMyBP-C showed that aberrant phosphorylation of cMyBP-C is unlikely to be responsible for altering these interactions. We show that the E258K mutation in cMyBP-C abolishes interaction between N-terminal cMyBP-C and myosin S2 by directly disrupting the cMyBP-C-S2 interface, independent of cMyBP-C phosphorylation. Similar to cMyBP-C ablation or phosphorylation, abolition of this inhibitory interaction accelerates contractile kinetics. Additionally, the E258K mutation impaired force production of mECT, which suggests that in addition to the loss of physiological function, this mutation disrupts contractility possibly by tethering the thick and thin filament or acting as an internal load.


Subject(s)
Cardiomyopathy, Hypertrophic/genetics , Carrier Proteins/genetics , Muscle Strength/genetics , Mutation , Myocardial Contraction/genetics , Myocardium/metabolism , Sarcomeres/metabolism , Actins/metabolism , Animals , Binding Sites , Carrier Proteins/chemistry , Carrier Proteins/metabolism , Humans , Kinetics , Mice , Myocardium/cytology , Myosin Heavy Chains/metabolism , Phosphorylation , Protein Binding , Protein Structure, Tertiary , Sarcomeres/physiology
15.
Anal Biochem ; 427(1): 79-81, 2012 Aug 01.
Article in English | MEDLINE | ID: mdl-22609075

ABSTRACT

Low-temperature nuclear magnetic resonance (NMR), especially under supercooled conditions, can give critical insight into biomolecular systems via slowed dynamics and exchange rates. These conditions can also increase correlation times of small molecules, potentially allowing for NMR structural study of small molecules at moderate field strengths. Agarose gels allow for supercooled conditions and are simple to prepare, invisible to NMR, and noninteractive with most biomolecules and organics. Here we demonstrate their use with nucleic acids, small organic molecules, and peptides.


Subject(s)
DNA/analysis , Nuclear Magnetic Resonance, Biomolecular/methods , Peptides/analysis , Sepharose/chemistry , Sucrose/analysis , Cold Temperature , Gels/chemistry , Oligonucleotides/analysis , Water/chemistry
16.
Med Res Rev ; 32(3): 659-83, 2012 May.
Article in English | MEDLINE | ID: mdl-22539108

ABSTRACT

DNA damage, a consequence of external factors and inherent metabolic processes, is omnipresent. Nature has devised multiple strategies to safeguard the genetic information and developed intricate repair mechanisms and pathways to reverse an array of different DNA lesions, including mismatches. Failure of the DNA repair systems may result in mutation, premature ageing, and cancer. In this review, we focus on structural and dynamic aspects of detection of lesions in base excision and mismatch repair. A thorough understanding of repair, pathways, and regulation is necessary to develop strategies for targeting DNA-related pathologies.


Subject(s)
DNA Damage , DNA Mismatch Repair , Chromatin/metabolism , DNA/chemistry , DNA/metabolism , DNA Repair , DNA-Binding Proteins/metabolism , Deoxyuridine/metabolism , Guanine/analogs & derivatives , Guanine/metabolism , Humans , Models, Molecular , MutS Homolog 2 Protein/metabolism , Uracil-DNA Glycosidase/metabolism
17.
J Mol Biol ; 416(3): 425-37, 2012 Feb 24.
Article in English | MEDLINE | ID: mdl-22227386

ABSTRACT

DNA sequence context has long been known to modulate detection and repair of DNA damage. Recent studies using experimental and computational approaches have sought to provide a basis for this observation. We have previously shown that an α-anomeric adenosine (αA) flanked by cytosines (5'CαAC-3') resulted in a kinked DNA duplex with an enlarged minor groove. Comparison of different flanking sequences revealed that a DNA duplex containing a 5'CαAG-3' motif exhibits unique substrate properties. However, this substrate was not distinguished by unusual thermodynamic properties. To understand the structural basis of the altered recognition, we have determined the solution structure of a DNA duplex with a 5'CαAG-3' core, using an extensive set of restraints including dipolar couplings and backbone torsion angles. The NMR structure exhibits an excellent agreement with the data (total R(X) <5.3%). The αA base is intrahelical, in a reverse Watson-Crick orientation, and forms a weak base pair with a thymine of the opposite strand. In comparison to the DNA duplex with a 5'CαAC-3' core, we observe a significant reduction of the local perturbation (backbone, stacking, tilt, roll, and twist), resulting in a straighter DNA with narrower minor groove. Overall, these features result in a less perturbed DNA helix and obscure the presence of the lesion compared to the 5'CαAC-3' sequence. The improved stacking of the 5'CαAG-3' core also affects the energetics of the DNA deformation that is required to form a catalytically competent complex. These traits provide a rationale for the modulation of the recognition by endonuclease IV.


Subject(s)
DNA Damage , DNA/chemistry , Models, Molecular , Nucleic Acid Conformation , Base Sequence , Computer Simulation , Deoxyribonuclease IV (Phage T4-Induced)/chemistry , Thermodynamics
18.
Biochemistry ; 50(19): 3903-12, 2011 May 17.
Article in English | MEDLINE | ID: mdl-21443203

ABSTRACT

Numerous DNA chemistries for improving oligodeoxynucleotide (ODN)-based RNA targeting have been explored. The majority of the modifications render the ODN/RNA target insensitive to RNase H1. Borano phosphonate ODN's are among the few modifications that are tolerated by RNase H1. To understand the effect of the stereochemistry of the BH(3) modification on the nucleic acid structure and RNase H1 enzyme activity, we have investigated two DNA/RNA hybrids containing either a R(P) or S(P) BH(3) modification by nuclear magnetic resonance (NMR) spectroscopy. T(M) studies show that the stabilities of R(P) and S(P) modified DNA/RNA hybrids are essentially identical (313.8 K) and similar to that of an unmodified control (312.9 K). The similarity is also reflected in the imino proton spectra. To characterize such similar structures, we used a large number of NMR restraints (including dipolar couplings and backbone torsion angles) to determine structural features that were important for RNase H1 activity. The final NMR structures exhibit excellent agreement with the data (total R(x) values of <6%) with helical properties between those of an A and B helix. Subtle backbone variations are observed in the DNA near the modification, while the RNA strands are relatively unperturbed. In the case of the S(P) modification, for which more perturbations are recorded, a slightly narrower minor groove is also obtained. Unique NOE base contacts localize the S(P) BH(3) group in the major groove while the R(P) BH(3) group points away from the DNA. However, this creates a potential clash of the R(P) BH(3) groups with important RNase H1 residues in a complex, while the S(P) BH(3) groups could be tolerated. We therefore predict that on the basis of our NMR structures a fully R(P) BH(3) DNA/RNA hybrid would not be a substrate for RNase H1.


Subject(s)
Boranes/chemical synthesis , DNA/chemistry , Nucleic Acid Heteroduplexes/chemical synthesis , Nucleic Acid Hybridization/methods , Phosphates/chemical synthesis , RNA/chemistry , Ribonuclease H/chemistry , Thermodynamics , DNA/genetics , Humans , Magnetic Resonance Spectroscopy , Nucleic Acid Conformation , Nucleic Acid Heteroduplexes/genetics , Polynucleotides/chemistry , Polynucleotides/genetics , RNA/genetics , Stereoisomerism , Substrate Specificity/genetics
19.
J Mol Biol ; 393(2): 369-82, 2009 Oct 23.
Article in English | MEDLINE | ID: mdl-19646998

ABSTRACT

The interactions between the HIV Rev-responsive element (RRE) RNA and the HIV regulatory protein Rev, are crucial for the HIV life-cycle. Earlier, we showed that single C(2)H(2) zinc fingers (znfs) have the same binding site as the Rev peptide and exhibit nanomolar affinity. In this study, the specific role of amino acid side chains and molecular processes involved with complex formation were investigated by perturbation of the binding energetics via changes in temperature, pH, buffers, and salt concentrations, as well as znf and RNA mutations, by isothermal titration calorimetry. Interestingly, despite the large cationic charge on the znfs, the number of interactions with the RNA phosphate backbone was lower than intuitively expected. The presence of binding induced protonation was established by ITC and localized by NMR to a histidine on the znf beta-sheet. The DeltaC(p) of znf-RNA binding was observed to be substantially negative and could not be accounted for by conventional solvent-accessible surface area models. An alternative model, based on the extent of hydrogen bond changes as a result of differences in ligand-induced water displacement at the binding site, provided reasonable explanation of the trends in DeltaC(p), as well as DeltaH and DeltaS. Our studies show that incorporation of favorable interactions at the solvent-excluded binding interface can be used to alleviate the unfavorable enthalpic penalties of displacing water molecules from the hydrated RNA surface.


Subject(s)
Gene Products, rev/metabolism , Genes, env/genetics , RNA, Viral/metabolism , Zinc Fingers/genetics , Amino Acid Sequence , Calorimetry , Circular Dichroism , Gene Products, rev/chemistry , Gene Products, rev/genetics , Hydrogen-Ion Concentration , Magnetic Resonance Spectroscopy , Molecular Sequence Data , Protein Binding/genetics , Protein Structure, Secondary , RNA, Viral/genetics , Sequence Homology, Amino Acid , Temperature , Thermodynamics
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