Research Topics
Genomes and GenesSpecies | Roderick CapaldiSummaryAffiliation: University of Oregon Country: USA Publications
Research Grants
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Detail Information
Publications
Investigating mitochondrial redox potential with redox-sensitive green fluorescent protein indicatorsGeorge T Hanson
Department of Biology, Institute of Molecular Biology, University of Oregon, Eugene, OR 97403-1229, USA
J Biol Chem 279:13044-53. 2004..T. Dooley, T. M. Dore, G. Hanson, W. C. Jackson, S. J. Remington, and R. Y. Tsien, submitted for publication), it is shown that the cytosol of HeLa cells is also unusually reducing but somewhat less so than the mitochondrial matrix...- Immunological approaches to the characterization and diagnosis of mitochondrial diseaseRoderick A Capaldi
Institute of Molecular Biology, University of Oregon, Eugene, OR 97403 1229, USA
Mitochondrion 4:417-26. 2004..Here we provide details of the mAbs currently available and describe optimized protocols for both immunohistochemistry using patient fibroblasts as well as Western blotting using either cell culture or biopsy material... - Cross-linking and electron microscopy studies of the structure and functioning of the Escherichia coli ATP synthaseR A Capaldi
Institute of Molecular Biology, University of Oregon, Eugene, OR 97403 1229, USA
J Exp Biol 203:29-33. 2000..The utility of these two approaches in particular, and the important insights they give into the structure and mechanism of the ATP synthase, are reviewed... - Mechanism of the F(1)F(0)-type ATP synthase, a biological rotary motorRoderick A Capaldi
Institute of Molecular Biology, University of Oregon, Eugene, OR 97403 1229, USA
Trends Biochem Sci 27:154-60. 2002..Evidence for the function of the rotary motor, from structural, genetic and biophysical studies, is reviewed here, and some uncertainties and remaining mysteries of the enzyme mechanism are also discussed... - A replicating module as the unit of mitochondrial structure and functioningRoderick A Capaldi
Institute of Molecular Biology, University of Oregon, Eugene, OR 97403 1229, USA
Biochim Biophys Acta 1555:192-5. 2002..This leads us to propose that a replicating module is the repeating unit of mitochondrial structure. Studies to examine heterogeneity of functioning within the organelle mass are briefly reviewed... - The mitochondrial inner membrane protein mitofilin exists as a complex with SAM50, metaxins 1 and 2, coiled-coil-helix coiled-coil-helix domain-containing protein 3 and 6 and DnaJC11Jing Xie
Institute of Molecular Biology, University of Oregon, Eugene, OR 97403, USA
FEBS Lett 581:3545-9. 2007.... - Immunocapture and microplate-based activity measurement of mammalian pyruvate dehydrogenase complexMargarita Lib
Institute of Molecular Biology, University of Oregon, Eugene, Orgon 97403-1229, USA
Anal Biochem 314:121-7. 2003.... - Energy substrate modulates mitochondrial structure and oxidative capacity in cancer cellsRodrigue Rossignol
Institute of Molecular Biology, University of Oregon, Eugene, Oregon, USA
Cancer Res 64:985-93. 2004..We compared our finding on HeLa cells with those for nontransformed fibroblasts to help distinguish the regulatory pathways... 
Lateral-flow immunoassay for detecting drug-induced inhibition of mitochondrial DNA replication and mtDNA-encoded protein synthesisSashi Nadanaciva
MitoSciences Inc, Eugene, OR 97403, USA
J Immunol Methods 343:1-12. 2009..The assay has high reproducibility, requires small amounts of sample, is quantitative, and is able to identify drugs which ultimately lead to a decrease in mtDNA-encoded proteins...- The subunit composition of the human NADH dehydrogenase obtained by rapid one-step immunopurificationJames Murray
Department of Molecular Biology, University of Oregon, Eugene 97403, USA
J Biol Chem 278:13619-22. 2003..The concordance of data from human and bovine complex I isolated by different procedures adds to the certainty that these novel proteins of seemingly diverse function are a part of complex I... 
Cytoskeletal-assisted dynamics of the mitochondrial reticulum in living cellsMichelle K Knowles
Department of Chemistry and Materials Science Institute, University of Oregon, Eugene 97403, USA
Proc Natl Acad Sci U S A 99:14772-7. 2002..This study quantitatively characterizes organelle dynamics in terms of collective cytoskeletal interactions in living cells...- Target identification of drug induced mitochondrial toxicity using immunocapture based OXPHOS activity assaysSashi Nadanaciva
MitoSciences Inc, 1850 Millrace Drive, Eugene, OR 97403, USA
Toxicol In Vitro 21:902-11. 2007..A major advantage of the immunocapture approach is that it can be used throughout drug screening from early compound evaluation to clinical trials... - The F(1)F(0) ATP synthase and mitochondrial respiratory chain complexes are present on the plasma membrane of an osteosarcoma cell line: An immunocytochemical studySarah K Yonally
Institute of Molecular Biology, University of Oregon, Eugene, OR 97403-1229, United States
Mitochondrion 6:305-14. 2006..A specific mechanism by which the mitochondrion and plasma membrane fuse to deliver organellar proteins is suggested... - Small-scale immunopurification of cytochrome c oxidase for a high-throughput multiplexing analysis of enzyme activity and amountJames Murray
MitoSciences Inc, Eugene, OR 97403 2095, USA
Biotechnol Appl Biochem 48:167-78. 2007..We show the utility of this approach by example of the analysis of fibroblasts from patients with COX activity deficiency and the effect of the antiretroviral drug ddC (2',3'-dideoxycytidine) on the biogenesis of the enzyme... - Early developmental pathology due to cytochrome c oxidase deficiency is revealed by a new zebrafish modelKatrina N Baden
Institute of Molecular Biology, University of Oregon, Eugene, Oregon 97403 1229, USA
J Biol Chem 282:34839-49. 2007..The zebrafish model has revealed tissue-specific responses to COX deficiency and holds promise for discovery of new therapies to treat mitochondrial diseases in humans... - Focused proteomics: towards a high throughput monoclonal antibody-based resolution of proteins for diagnosis of mitochondrial diseasesJames Murray
Institute of Molecular Biology, Department of Biology, University of Oregon, Eugene OR 97403-1229, USA
Biochim Biophys Acta 1659:206-11. 2004.... - Quantitative proteomics: the copy number of pyruvate dehydrogenase is more than 10(2)-fold lower than that of complex III in human mitochondriaJames Murray
Institute of Molecular Biology, University of Oregon, Eugene, OR 97403 1229, USA
FEBS Lett 529:173-8. 2002..In Rho0 fibroblasts there is a 64% reduction of complex III but the concentration of PDH remains the same as wild-type... - An immunocytochemical approach to detection of mitochondrial disordersBonnie J Hanson
Molecular Probes, Inc, University of Oregon, Eugene, Oregon 97403, USA
J Histochem Cytochem 50:1281-8. 2002..Immunocytochemical analysis as described here should be considered as an initial screen for mitochondrial disorders by which to direct (and limit) the subsequent enzymatic and genetic tests required to make an unambiguous diagnosis... - A functionally active human F1F0 ATPase can be purified by immunocapture from heart tissue and fibroblast cell lines. Subunit structure and activity studiesRobert Aggeler
Institute of Molecular Biology, University of Oregon, Eugene, OR 97403, USA
J Biol Chem 277:33906-12. 2002..The system is therefore suitable to screen patient-derived samples for alterations in amount or functionality of both the F(1)F(0) ATPase and IF(1)... - Screening for the metabolic basis of neurodegeneration: developing a focused proteomic approachJames Murray
MitoSciences Inc, Eugene, OR, USA
Ann N Y Acad Sci 1147:348-57. 2008.... - Novel antibody-based strategies for the rapid diagnosis of mitochondrial disease and dysfunctionMichael F Marusich
MitoSciences, Inc, 1850 Millrace Dr, Eugene, OR 97403, USA
Int J Biochem Cell Biol 41:2081-8. 2009.... - Analysis of steady-state protein phosphorylation in mitochondria using a novel fluorescent phosphosensor dyeBirte Schulenberg
Proteomics Section, Molecular Probes, Inc, Eugene, Oregon 97402-9144, USA
J Biol Chem 278:27251-5. 2003..One novel and prominent phosphoprotein identified in this manner was determined to be the 42-kDa subunit of mitochondrial complex I... - The cristal membrane of mitochondria is the principal site of oxidative phosphorylationRobert W Gilkerson
Institute of Molecular Biology, University of Oregon, Eugene, OR 97403-1229, USA
FEBS Lett 546:355-8. 2003..Our results argue for restricted diffusion of complexes through the cristal junctions and indicate that the mitochondrial cristae comprise a regulated submitochondrial compartment specialized for ATP production... - Rapid analysis of mitochondrial DNA depletion by fluorescence in situ hybridization and immunocytochemistry: potential strategies for HIV therapeutic monitoringMichael S Janes
Molecular Probes, Inc, 29851 Willow Creek Road, Eugene, Oregon 97402, USA
J Histochem Cytochem 52:1011-8. 2004.... - Characterization of dynamic and steady-state protein phosphorylation using a fluorescent phosphoprotein gel stain and mass spectrometryBirte Schulenberg
Proteomics Department, Molecular Probes, Inc, Eugene, OR 97402, USA
Electrophoresis 25:2526-32. 2004.... - Mitochondrial oxidative phosphorylation protein levels in peripheral blood mononuclear cells correlate with levels in subcutaneous adipose tissue within samples differing by HIV and lipoatrophy statusCecilia M Shikuma
Hawaii AIDS Clinical Research Program, John A Burns School of Medicine, University of Hawaii Manoa, Honolulu, Hawaii 96816, USA
AIDS Res Hum Retroviruses 24:1255-62. 2008..We conclude that CI and CIV levels in PBMCs correlate to their respective levels in fat and may have utility as surrogate markers of mitochondrial dysfunction in lipoatrophy... - Characterization of the human heart mitochondrial proteomeSteven W Taylor
MitoKor, 11494 Sorrento Valley Road, San Diego, California 92121, USA
Nat Biotechnol 21:281-6. 2003..The biochemical roles of 19% of the identified proteins have not been defined. This database of proteins provides a comprehensive resource for the discovery of novel mitochondrial functions and pathways... - Angiostatin-like activity of a monoclonal antibody to the catalytic subunit of F1F0 ATP synthaseSulene L Chi
Department of Pathology, Duke University Medical Center, Durham, NC 27710, USA
Cancer Res 67:4716-24. 2007..Thus, MAb3D5AB1 shows angiostatin-like properties superior to angiostatin and may be exploited in cancer chemotherapy... - An Inhibitor of the F1 subunit of ATP synthase (IF1) modulates the activity of angiostatin on the endothelial cell surfaceNick R Burwick
Department of Pathology, Duke University Medical Center, Durham, North Carolina 27710, USA
J Biol Chem 280:1740-5. 2005..These data suggest that there is a relationship between the binding sites of IF1 and angiostatin on ATP synthase and that IF1 could be employed to modulate angiogenesis... - Oxidative post-translational modification of tryptophan residues in cardiac mitochondrial proteinsSteven W Taylor
MitoKor, San Diego, California 92121, USA
J Biol Chem 278:19587-90. 2003.... - An alternative strategy to determine the mitochondrial proteome using sucrose gradient fractionation and 1D PAGE on highly purified human heart mitochondriaSteven W Taylor
MitoKor, 11494 Sorrento Valley Road, San Diego California 92121, USA
J Proteome Res 1:451-8. 2002..The technique described here should also be useful for the identification of new protein-protein associations as exemplified by the validation of a recently discovered complex that involves proteins belonging to the prohibitin family... - Rapid purification and mass spectrometric characterization of mitochondrial NADH dehydrogenase (Complex I) from rodent brain and a dopaminergic neuronal cell lineBirgit Schilling
Buck Institute for Age Research, Novato, CA 94945, USA
Mol Cell Proteomics 4:84-96. 2005....
Research Grants
- ATP SYNTHASERoderick Capaldi; Fiscal Year: 1999..These introduced cysteine residues are used to covalently attach reporter groups of conformational changes. In this way, kinetic analyses of conformational changes at various sites in the enzyme complex can be performed. ..
- STALK AND FO OF THE ATP SYNTHASERoderick Capaldi; Fiscal Year: 2001..Our idea is that this mobile element links the three different catalytic sites, in turn, with a single proton channel in the F0 to maximize the efficiency of energy coupling. ..
- STUDIES OF ATP SYNTHETASE FROM HEART MITOCHONDRIARoderick Capaldi; Fiscal Year: 1980..Special attention will be paid to the arrangement of the DCCD binding proteolipid as this component of the ATP synthetase has been implicated in proton translocation...
- STUDIES OF ATP SYNTHASERoderick Capaldi; Fiscal Year: 1993....
- STUDIES OF ATP SYNTHASERoderick Capaldi; Fiscal Year: 2003..Studies are planned to examine the enzymatic properties and the assembly of F1F0 in cells of patients harboring subunit 6 mutations. ..