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Research Output 1980 2019

  • 7940 Citations
  • 45 h-Index
  • 138 Article
  • 2 Chapter
  • 2 Comment/debate
  • 1 Review article
2019

Recent innovations in membrane-protein structural biology [version 1; referees: 3 approved]

Allen, J., Jan 1 2019, In : F1000Research. 8, 211.

Research output: Contribution to journalReview article

Open Access
Membrane Proteins
Innovation
Crystals
X-Rays
X rays
2018

Influence of the Electrochemical Properties of the Bacteriochlorophyll Dimer on Triplet Energy-Transfer Dynamics in Bacterial Reaction Centers

Mandal, S., Espiritu, E., Akram, N., Lin, S., Williams, J., Allen, J. & Woodbury, N., Nov 8 2018, In : Journal of Physical Chemistry B. 122, 44, p. 10097-10107 11 p.

Research output: Contribution to journalArticle

Bacteriochlorophylls
Energy Transfer
Electrochemical properties
Dimers
Energy transfer
1 Citation (Scopus)

Remembering George Feher (1924–2017)

Okamura, M. Y., Lubitz, W. & Allen, J., May 25 2018, (Accepted/In press) In : Photosynthesis Research. p. 1-15 15 p.

Research output: Contribution to journalArticle

Photosynthesis
photosynthesis
Photosynthetic Reaction Center Complex Proteins
Proton transfer
autotrophs
2017

Binding and Energetics of Electron Transfer between an Artificial Four-Helix Mn-Protein and Reaction Centers from Rhodobacter sphaeroides

Espiritu, E., Olson, T. L., Williams, J. & Allen, J., Dec 12 2017, In : Biochemistry. 56, 49, p. 6460-6469 10 p.

Research output: Contribution to journalArticle

Rhodobacter sphaeroides
Electrons
Bacteriochlorophylls
Proteins
Dimers
6 Citations (Scopus)

Biochemical and spectroscopic characterization of dinuclear Mn-sites in artificial four-helix bundle proteins

Olson, T. L., Espiritu, E., Edwardraja, S., Canarie, E., Flores, M., Williams, J., Ghirlanda, G. & Allen, J., Dec 1 2017, In : Biochimica et Biophysica Acta - Bioenergetics. 1858, 12, p. 945-954 10 p.

Research output: Contribution to journalArticle

Proteins
Hydrogen Peroxide
Metals
Electrons
Oxygen
1 Citation (Scopus)

Design of energy-transducing artificial cells

Allen, J., Apr 11 2017, In : Proceedings of the National Academy of Sciences of the United States of America. 114, 15, p. 3790-3791 2 p.

Research output: Contribution to journalComment/debate

Artificial Cells
1 Citation (Scopus)

Identification of the Ferredoxin-Binding Site of a Ferredoxin-Dependent Cyanobacterial Nitrate Reductase

Srivastava, A. P., Hardy, E. P., Allen, J., Vaccaro, B. J., Johnson, M. K. & Knaff, D. B., Oct 17 2017, In : Biochemistry. 56, 41, p. 5582-5592 11 p.

Research output: Contribution to journalArticle

Nitrate Reductase
Ferredoxins
Binding Sites
Electron Spin Resonance Spectroscopy
Computer Simulation
5 Citations (Scopus)

Mechanism of Triplet Energy Transfer in Photosynthetic Bacterial Reaction Centers

Mandal, S., Carey, A. M., Locsin, J., Gao, B. R., Williams, J., Allen, J., Lin, S. & Woodbury, N., Jul 13 2017, In : Journal of Physical Chemistry B. 121, 27, p. 6499-6510 12 p.

Research output: Contribution to journalArticle

Photosynthetic Reaction Center Complex Proteins
carotenoids
Energy Transfer
Carotenoids
Energy transfer
2016
8 Citations (Scopus)

Design of dinuclear manganese cofactors for bacterial reaction centers

Olson, T. L., Espiritu, E., Edwardraja, S., Simmons, C. R., Williams, J., Ghirlanda, G. & Allen, J., May 1 2016, In : Biochimica et Biophysica Acta - Bioenergetics. 1857, 5, p. 539-547 9 p.

Research output: Contribution to journalArticle

Manganese
Proteins
Metals
Electrons
Cytochromes c2

Retraction: The SMN structure reveals its crucial role in snRNP assembly [Human Molecular Genetics, 24, 8, 2138-46]doi: 10.1093/hmg/ddu734

Seng, C. O., Magee, C., Young, P. J., Lorson, C. L. & Allen, J., 2016, In : Human Molecular Genetics. 25, 24, p. 5516 1 p.

Research output: Contribution to journalComment/debate

Small Nuclear Ribonucleoproteins
Structural Models
Medical Genetics
Molecular Biology
2015
6 Citations (Scopus)

Copper Environment in Artificial Metalloproteins Probed by Electron Paramagnetic Resonance Spectroscopy

Flores, M., Olson, T. L., Wang, D., Edwardraja, S., Shinde, S., Williams, J., Ghirlanda, G. & Allen, J., Oct 29 2015, In : Journal of Physical Chemistry B. 119, 43, p. 13825-13833 9 p.

Research output: Contribution to journalArticle

Metalloproteins
Paramagnetic resonance
Copper
electron paramagnetic resonance
Metals
5 Citations (Scopus)

Identification of Amino Acids at the Catalytic Site of a Ferredoxin-Dependent Cyanobacterial Nitrate Reductase

Srivastava, A. P., Allen, J., Vaccaro, B. J., Hirasawa, M., Alkul, S., Johnson, M. K. & Knaff, D. B., Sep 15 2015, In : Biochemistry. 54, 36, p. 5557-5568 12 p.

Research output: Contribution to journalArticle

Nitrate Reductase
Ferredoxins
Catalytic Domain
Mutagenesis
Electrons
11 Citations (Scopus)

The SMN structure reveals its crucial role in snRNP assembly

Seng, C. O., Magee, C., Young, P. J., Lorson, C. L. & Allen, J., Apr 15 2015, In : Human Molecular Genetics. 24, 8, p. 2138-2146 9 p., ddu734.

Research output: Contribution to journalArticle

Small Nuclear Ribonucleoproteins
Spinal Muscular Atrophy
SMN Complex Proteins
Spliceosomes
RNA Splicing
2014
electron paramagnetic resonance spectroscopy
Electron Spin Resonance Spectroscopy
electronics
Electronic structure
Paramagnetic resonance
5 Citations (Scopus)

Energetics of cofactors in photosynthetic complexes: Relationship between protein-cofactor interactions and midpoint potentials

Allen, J. & Williams, J., Jan 1 2014, The Biophysics of Photosynthesis. Springer New York, p. 275-295 21 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Photosynthetic Reaction Center Complex Proteins
Photosystem II Protein Complex
Electrons
Bacteriochlorophylls
Dimers
9 Citations (Scopus)

Interface for light-driven electron transfer by photosynthetic complexes across block copolymer membranes

Kuang, L., Olson, T. L., Lin, S., Flores, M., Jiang, Y., Zheng, W., Williams, J., Allen, J. & Liang, H., Mar 6 2014, In : Journal of Physical Chemistry Letters. 5, 5, p. 787-791 5 p.

Research output: Contribution to journalArticle

Photosynthetic Reaction Center Complex Proteins
block copolymers
Block copolymers
electron transfer
membranes
6 Citations (Scopus)

Purification and biophysical characterization of the CapA membrane protein FTT0807 from francisella tularensis

Martin-Garcia, J. M., Hansen, D., Zook, J., Loskutov, A. V., Robida, M. D., Craciunescu, F. M., Sykes, K. F., Wachter, R., Fromme, P. & Allen, J., Apr 1 2014, In : Biochemistry. 53, 12, p. 1958-1970 13 p.

Research output: Contribution to journalArticle

Francisella tularensis
Purification
Membrane Proteins
Green Fluorescent Proteins
Ionic strength
8 Citations (Scopus)

The three-dimensional structures of bacterial reaction centers

Olson, T. L., Williams, J. & Allen, J., 2014, In : Photosynthesis Research. 120, 1-2, p. 87-98 12 p.

Research output: Contribution to journalArticle

Bacterial Structures
Photosynthesis
photosynthesis
electron transfer
Blastochloris viridis
54 Citations (Scopus)

Water oxidation by a nickel-glycine catalyst

Wang, D., Ghirlanda, G. & Allen, J., Jul 23 2014, In : Journal of the American Chemical Society. 136, 29, p. 10198-10201 4 p.

Research output: Contribution to journalArticle

Molecular oxygen
Nickel
Glycine
Amino acids
Current density
2013
12 Citations (Scopus)
Metalloproteins
Oxidation-Reduction
Proteins
Redox reactions
Manganese
10 Citations (Scopus)

Roles of four conserved basic amino acids in a ferredoxin-dependent cyanobacterial nitrate reductase

Srivastava, A. P., Hirasawa, M., Bhalla, M., Chung, J. S., Allen, J., Johnson, M. K., Tripathy, J. N., Rubio, L. M., Vaccaro, B., Subramanian, S., Flores, E., Zabet-Moghaddam, M., Stitle, K. & Knaff, D. B., Jun 25 2013, In : Biochemistry. 52, 25, p. 4343-4353 11 p.

Research output: Contribution to journalArticle

Nitrate Reductase
Ferredoxins
Basic Amino Acids
Electrons
Glutamine
2012
14 Citations (Scopus)

Light-driven oxygen production from superoxide by Mn-binding bacterial reaction centers

Allen, J., Olson, T. L., Oyala, P., Lee, W. J., Tufts, A. A. & Williams, J., Feb 14 2012, In : Proceedings of the National Academy of Sciences of the United States of America. 109, 7, p. 2314-2318 5 p.

Research output: Contribution to journalArticle

Superoxides
Photosynthetic Reaction Center Complex Proteins
Oxygen
Light
Photosystem II Protein Complex
14 Citations (Scopus)

PH-dependent structural conformations of B-phycoerythrin from Porphyridium cruentum

Camara-Artigas, A., Bacarizo, J., Andujar-Sanchez, M., Ortiz-Salmeron, E., Mesa-Valle, C., Cuadri, C., Martin-Garcia, J. M., Martinez-Rodriguez, S., Mazzuca-Sobczuk, T., Ibañez, M. J. & Allen, J., Oct 2012, In : FEBS Journal. 279, 19, p. 3680-3691 12 p.

Research output: Contribution to journalArticle

Porphyridium
Phycoerythrin
Conformations
Chromophores
Rhodophyta
10 Citations (Scopus)

Reinterpretation of the electron density at the site of the eighth bacteriochlorophyll in the FMO protein from Pelodictyon phaeum

Tronrud, D. E. & Allen, J., Apr 2012, In : Photosynthesis Research. 112, 1, p. 71-74 4 p.

Research output: Contribution to journalArticle

Pelodictyon phaeum
Bacteriochlorophylls
Carrier concentration
electrons
Electrons
2011
10 Citations (Scopus)
carotenoids
Carotenoids
Excited states
proteins
Proteins
10 Citations (Scopus)

Energetics for Oxidation of a Bound Manganese Cofactor in Modified Bacterial Reaction Centers

Kálmán, L., Williams, J. & Allen, J., Apr 26 2011, In : Biochemistry. 50, 16, p. 3310-3320 11 p.

Research output: Contribution to journalArticle

Manganese
Oxidation-Reduction
Bicarbonates
Oxidation
Rate constants
8 Citations (Scopus)

Light-induced conformational changes in photosynthetic reaction centers: Impact of detergents and lipids on the electronic structure of the primary electron donor

Deshmukh, S. S., Akhavein, H., Williams, J., Allen, J. & Kálmán, L., Jun 14 2011, In : Biochemistry. 50, 23, p. 5249-5262 14 p.

Research output: Contribution to journalArticle

Photosynthetic Reaction Center Complex Proteins
Detergents
Electronic structure
Electrons
Lipids
13 Citations (Scopus)

Light-induced conformational changes in photosynthetic reaction centers: Dielectric relaxation in the vicinity of the dimer

Deshmukh, S. S., Williams, J., Allen, J. & Kálmán, L., Jan 25 2011, In : Biochemistry. 50, 3, p. 340-348 9 p.

Research output: Contribution to journalArticle

Photosynthetic Reaction Center Complex Proteins
Dielectric relaxation
Lighting
Dimers
Bacteriochlorophylls
11 Citations (Scopus)

Light-Induced Conformational Changes in Photosynthetic Reaction Centers: Redox-Regulated Proton Pathway near the Dimer

Deshmukh, S. S., Williams, J., Allen, J. & Kálmán, L., Apr 26 2011, In : Biochemistry. 50, 16, p. 3321-3331 11 p.

Research output: Contribution to journalArticle

Photosynthetic Reaction Center Complex Proteins
Dimers
Oxidation-Reduction
Protons
Light
22 Citations (Scopus)
Photosystem II Protein Complex
Photosynthesis
photosystem II
photosynthesis
Electrons
26 Citations (Scopus)

The three-dimensional structure of the FMO protein from Pelodictyon phaeum and the implications for energy transfer

Larson, C. R., Seng, C. O., Lauman, L., Matthies, H. J., Wen, J., Blankenship, R. E. & Allen, J., Feb 2011, In : Photosynthesis Research. 107, 2, p. 139-150 12 p.

Research output: Contribution to journalArticle

Pelodictyon phaeum
Energy Transfer
Bacteriochlorophylls
energy transfer
Energy transfer
2 Citations (Scopus)

Thin film voltammetry of wild type and mutant reaction center proteins from photosynthetic bacteria

Zhang, Y., Lafountain, A. M., Magdaong, N., Fuciman, M., Allen, J., Frank, H. A. & Rusling, J. F., Mar 31 2011, In : Journal of Physical Chemistry B. 115, 12, p. 3226-3232 7 p.

Research output: Contribution to journalArticle

Voltammetry
bacteria
Bacteria
proteins
Proteins
4 Citations (Scopus)

Understanding the polymorphic behaviour of a mutant of the -spectrin SH3 domain by means of two 1.1 Å resolution structures

Cámara-Artigas, A., Gavira, J. A., Casares, S., Garcia-Ruiz, J. M., Conejero-Lara, F., Allen, J. & Martinez, J. C., Mar 2011, In : Acta Crystallographica Section D: Biological Crystallography. 67, 3, p. 189-196 8 p.

Research output: Contribution to journalArticle

Spectrin
src Homology Domains
formic acid
Proline
X-Ray Diffraction
2010
2 Citations (Scopus)

Electronic structure of Fe3+ at a metal-binding site introduced in modified bacterial reaction centers

Kálmán, L., Flores, M., Williams, J. & Allen, J., 2010, In : Applied Magnetic Resonance. 37, 1, p. 27-37 11 p.

Research output: Contribution to journalArticle

electronic structure
iron
metals
manganese
carbonates
22 Citations (Scopus)

Enzymatic properties of the ferredoxin-dependent nitrite reductase from chlamydomonas reinhardtii. Evidence for hydroxylamine as a late intermediate in ammonia production

Hirasawa, M., Tripathy, J. N., Sommer, F., Somasundaram, R., Chung, J. S., Nestander, M., Kruthiventi, M., Zabet-Moghaddam, M., Johnson, M. K., Merchant, S. S., Allen, J. & Knaff, D. B., Jan 2010, In : Photosynthesis Research. 103, 2, p. 67-77 11 p.

Research output: Contribution to journalArticle

Ferredoxin-Nitrite Reductase
Nitrite Reductases
Chlamydomonas reinhardtii
Ferredoxins
nitrite reductase
22 Citations (Scopus)

The influence of hydrogen bonds on the electronic structure of light-harvesting complexes from photosynthetic bacteria

Uyeda, G., Williams, J., Roman, M., Mattioli, T. A. & Allen, J., Feb 16 2010, In : Biochemistry. 49, 6, p. 1146-1159 14 p.

Research output: Contribution to journalArticle

Photosynthetic Reaction Center Complex Proteins
Electronic structure
Hydrogen
Bacteria
Hydrogen bonds
2 Citations (Scopus)

Three-dimensional structures reveal multiple ADP/ATP binding modes for a synthetic class of artificial proteins

Simmons, C. R., Magee, C. L., Smith, D. A., Lauman, L., Chaput, J. C. & Allen, J., Oct 12 2010, In : Biochemistry. 49, 40, p. 8689-8699 11 p.

Research output: Contribution to journalArticle

Adenosine Diphosphate
Adenosine Triphosphate
Proteins
Catalysis
Synthetic Biology
2009
11 Citations (Scopus)

A synthetic protein selected for ligand binding affinity mediates ATP hydrolysis

Simmons, C. R., Stomel, J. M., McConnell, M. D., Smith, D. A., Watkins, J. L., Allen, J. & Chaput, J. C., Aug 21 2009, In : ACS Chemical Biology. 4, 8, p. 649-658 10 p.

Research output: Contribution to journalArticle

Hydrolysis
Adenosine Triphosphate
Ligands
Proteins
Synthetic Biology
8 Citations (Scopus)

Effect of anions on the binding and oxidation of divalent manganese and iron in modified bacterial reaction centers

Tang, K., Williams, J., Allen, J. & Kálmán, L., 2009, In : Biophysical Journal. 96, 8, p. 3295-3304 10 p.

Research output: Contribution to journalArticle

Manganese
Bicarbonates
Anions
Iron
Metals
17 Citations (Scopus)

Electron transfer in the Rhodobacter sphaeroides reaction center assembled with zinc bacteriochlorophyll

Lin, S., Jaschke, P. R., Wang, H., Paddock, M., Tufts, A., Allen, J., Rosell, F. I., Mauk, A. G., Woodbury, N. & Beatty, J. T., May 26 2009, In : Proceedings of the National Academy of Sciences of the United States of America. 106, 21, p. 8537-8542 6 p.

Research output: Contribution to journalArticle

Bacteriochlorophylls
Rhodobacter sphaeroides
Zinc
Electrons
Photosystem I Protein Complex
10 Citations (Scopus)

EPR, ENDOR, and Special TRIPLE measurements of P•+ in wild type and modified reaction centers from Rb. sphaeroides

Allen, J., Cordova, J. M., Jolley, C. C., Murray, T. A., Schneider, J. W., Woodbury, N., Williams, J., Niklas, J., Klihm, G., Reus, M. & Lubitz, W., Jan 2009, In : Photosynthesis Research. 99, 1, p. 1-10 10 p.

Research output: Contribution to journalArticle

Electron Spin Resonance Spectroscopy
Paramagnetic resonance
electron paramagnetic resonance spectroscopy
Electrons
Aspartic Acid
6 Citations (Scopus)

Structures of proteins and cofactors: X-ray crystallography

Allen, J., Seng, C. & Larson, C., Nov 2009, In : Photosynthesis Research. 102, 2, p. 231-240 10 p.

Research output: Contribution to journalArticle

X ray crystallography
X Ray Crystallography
protein structure
X-ray diffraction
Proteobacteria
15 Citations (Scopus)

The interaction of spinach nitrite reductase with ferredoxin: A site-directed mutation study

Hirasawa, M., Tripathy, J. N., Somasundaram, R., Johnson, M. K., Bhalla, M., Allen, J. & Knaff, D. B., May 2009, In : Molecular Plant. 2, 3, p. 407-415 9 p.

Research output: Contribution to journalArticle

Ferredoxin-Nitrite Reductase
Ferredoxins
nitrite reductase
ferredoxins
Spinacia oleracea
30 Citations (Scopus)

Unusual temperature dependence of photosynthetic electron transfer due to protein dynamics

Wang, H., Lin, S., Katilius, E., Laser, C., Allen, J., Williams, J. & Woodbury, N., Jan 22 2009, In : Journal of Physical Chemistry B. 113, 3, p. 818-824 7 p.

Research output: Contribution to journalArticle

electron transfer
proteins
Proteins
Conformations
temperature dependence
2008
16 Citations (Scopus)

Comparison of bacterial reaction centers and photosystem II

Kálmán, L., Williams, J. & Allen, J., Oct 2008, In : Photosynthesis Research. 98, 1-3, p. 643-655 13 p.

Research output: Contribution to journalArticle

Photosystem II Protein Complex
photosystem II
electrons
Electrons
protons
8 Citations (Scopus)

Reaction Centers from Purple Bacteria

Allen, J. & Williams, J., Sep 5 2008, Photosynthetic Protein Complexes: A Structural Approach. Wiley-VCH Verlag GmbH & Co. KGaA, p. 275-293 19 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Proteobacteria
Carotenoids
2007
3 Citations (Scopus)

Changes in metal specificity due to iron ligand substitutions in reaction centers from Rhodobacter sphaeroides

Williams, J., Paddock, M. L., Way, Y. P. & Allen, J., 2007, In : Applied Magnetic Resonance. 31, 1-2, p. 45-58 14 p.

Research output: Contribution to journalArticle

Substitution reactions
Iron
Metals
substitutes
Ligands
177 Citations (Scopus)

Protein dynamics control the kinetics of initial electron transfer in photosynthesis

Wang, H., Lin, S., Allen, J., Williams, J., Blankert, S., Laser, C. & Woodbury, N., May 4 2007, In : Science. 316, 5825, p. 747-750 4 p.

Research output: Contribution to journalArticle

Photosynthesis
Electrons
Rhodobacter sphaeroides
Proteins
Tryptophan
3 Citations (Scopus)
Bacteriochlorophylls
Dimers
Rate constants
Deprotonation
Biochemistry
15 Citations (Scopus)

Structural insights into the evolution of a non-biological protein: Importance of surface residues in protein fold optimization

Smith, M. D., Rosenow, M. A., Wang, M., Allen, J., Szostak, J. W. & Chaput, J. C., May 23 2007, In : PLoS One. 2, 5, e467.

Research output: Contribution to journalArticle

Membrane Proteins
Proteins
proteins
Mutation
mutation