Published in Biochemistry on August 25, 2009
The CCP4 suite: programs for protein crystallography. Acta Crystallogr D Biol Crystallogr (1994) 187.88
Refinement of macromolecular structures by the maximum-likelihood method. Acta Crystallogr D Biol Crystallogr (1997) 137.43
Electrostatics of nanosystems: application to microtubules and the ribosome. Proc Natl Acad Sci U S A (2001) 42.14
Likelihood-enhanced fast translation functions. Acta Crystallogr D Biol Crystallogr (2005) 29.38
Raster3D: photorealistic molecular graphics. Methods Enzymol (1997) 27.30
Likelihood-enhanced fast rotation functions. Acta Crystallogr D Biol Crystallogr (2004) 23.86
Use of TLS parameters to model anisotropic displacements in macromolecular refinement. Acta Crystallogr D Biol Crystallogr (2001) 21.01
Pushing the boundaries of molecular replacement with maximum likelihood. Acta Crystallogr D Biol Crystallogr (2001) 15.88
Zero-dose extrapolation as part of macromolecular synchrotron data reduction. Acta Crystallogr D Biol Crystallogr (2003) 12.96
Searching protein structure databases with DaliLite v.3. Bioinformatics (2008) 12.15
PDB2PQR: an automated pipeline for the setup of Poisson-Boltzmann electrostatics calculations. Nucleic Acids Res (2004) 11.53
Force fields for protein simulations. Adv Protein Chem (2003) 8.70
The autotrophic pathway of acetate synthesis in acetogenic bacteria. Annu Rev Microbiol (1986) 4.48
Very fast prediction and rationalization of pKa values for protein-ligand complexes. Proteins (2008) 3.82
Acetogenesis and the Wood-Ljungdahl pathway of CO(2) fixation. Biochim Biophys Acta (2008) 3.08
A Ni-Fe-Cu center in a bifunctional carbon monoxide dehydrogenase/acetyl-CoA synthase. Science (2002) 2.98
Crystal structure of a carbon monoxide dehydrogenase reveals a [Ni-4Fe-5S] cluster. Science (2001) 2.78
Ni-Zn-[Fe4-S4] and Ni-Ni-[Fe4-S4] clusters in closed and open subunits of acetyl-CoA synthase/carbon monoxide dehydrogenase. Nat Struct Biol (2003) 2.75
Life in hot carbon monoxide: the complete genome sequence of Carboxydothermus hydrogenoformans Z-2901. PLoS Genet (2005) 2.21
The rocky roots of the acetyl-CoA pathway. Trends Biochem Sci (2004) 1.92
Carbon dioxide activation at the Ni,Fe-cluster of anaerobic carbon monoxide dehydrogenase. Science (2007) 1.66
Life on carbon monoxide: X-ray structure of Rhodospirillum rubrum Ni-Fe-S carbon monoxide dehydrogenase. Proc Natl Acad Sci U S A (2001) 1.56
A functional Ni-Ni-[4Fe-4S] cluster in the monomeric acetyl-CoA synthase from Carboxydothermus hydrogenoformans. Proc Natl Acad Sci U S A (2003) 1.52
Life with CO or CO2 and H2 as a source of carbon and energy. FASEB J (1991) 1.29
Role of the [4Fe-4S] cluster in reductive activation of the cobalt center of the corrinoid iron-sulfur protein from Clostridium thermoaceticum during acetate biosynthesis. Biochemistry (1998) 1.20
Xenon in and at the end of the tunnel of bifunctional carbon monoxide dehydrogenase/acetyl-CoA synthase. Biochemistry (2008) 1.13
Hybrid-cluster protein (HCP) from Desulfovibrio vulgaris (Hildenborough) at 1.6 A resolution. Biochemistry (2000) 1.11
Structure of the alpha2epsilon2 Ni-dependent CO dehydrogenase component of the Methanosarcina barkeri acetyl-CoA decarbonylase/synthase complex. Proc Natl Acad Sci U S A (2008) 1.05
Pulse-chase studies of the synthesis of acetyl-CoA by carbon monoxide dehydrogenase/acetyl-CoA synthase: evidence for a random mechanism of methyl and carbonyl addition. J Biol Chem (2008) 0.98
Nickel in subunit beta of the acetyl-CoA decarbonylase/synthase multienzyme complex in methanogens. Catalytic properties and evidence for a binuclear Ni-Ni site. J Biol Chem (2002) 0.97
Partial reactions catalyzed by protein components of the acetyl-CoA decarbonylase synthase enzyme complex from Methanosarcina barkeri. J Biol Chem (1996) 0.93
Crystallographic evidence for a CO/CO(2) tunnel gating mechanism in the bifunctional carbon monoxide dehydrogenase/acetyl coenzyme A synthase from Moorella thermoacetica. J Biol Inorg Chem (2004) 0.92
Formation of carbon monoxide from CO2 and H2 by Methanobacterium thermoautotrophicum. Eur J Biochem (1985) 0.92
Genetic construction of truncated and chimeric metalloproteins derived from the alpha subunit of acetyl-CoA synthase from Clostridium thermoaceticum. J Am Chem Soc (2002) 0.91
Two separate one-electron steps in the reductive activation of the A cluster in subunit beta of the ACDS complex in Methanosarcina thermophila. Biochemistry (2008) 0.90
The evolution of acetyl-CoA synthase. Orig Life Evol Biosph (2001) 0.90
Interaction of ferredoxin with carbon monoxide dehydrogenase from Clostridium thermoaceticum. J Biol Chem (1992) 0.88
Chemically distinct Ni sites in the A-cluster in subunit beta of the acetyl-CoA decarbonylase/synthase complex from Methanosarcina thermophila: Ni L-edge absorption and X-ray magnetic circular dichroism analyses. J Am Chem Soc (2004) 0.87
Structural and functional relationships in the hybrid cluster protein family: structure of the anaerobically purified hybrid cluster protein from Desulfovibrio vulgaris at 1.35 A resolution. Acta Crystallogr D Biol Crystallogr (2008) 0.86
Involvement of tryptophan residues at the coenzyme A binding site of carbon monoxide dehydrogenase from Clostridium thermoaceticum. Biochemistry (1988) 0.85
Structural bases for the catalytic mechanism of Ni-containing carbon monoxide dehydrogenases. Dalton Trans (2005) 0.85
The A-cluster in subunit beta of the acetyl-CoA decarbonylase/synthase complex from Methanosarcina thermophila: Ni and Fe K-edge XANES and EXAFS analyses. J Am Chem Soc (2003) 0.85
Kinetics of CO insertion and acetyl group transfer steps, and a model of the acetyl-CoA synthase catalytic mechanism. J Am Chem Soc (2006) 0.83
Equilibrium dialysis study and mechanistic implications of coenzyme A binding to acetyl-CoA synthase/carbon monoxide dehydrogenase from Clostridium thermoaceticum. J Biol Inorg Chem (1999) 0.79
Combination of methods used in the structure solution of pyruvate:ferredoxin oxidoreductase from two crystal forms. Acta Crystallogr D Biol Crystallogr (1999) 0.79
Chemical modification of the functional arginine residues of carbon monoxide dehydrogenase from Clostridium thermoaceticum. Biochemistry (1989) 0.79
Autocatalytic activation of acetyl-CoA synthase. J Biol Inorg Chem (2004) 0.78
Structure of dual function iron regulatory protein 1 complexed with ferritin IRE-RNA. Science (2006) 2.88
Crystal structure of human butyrylcholinesterase and of its complexes with substrate and products. J Biol Chem (2003) 2.88
Ni-Zn-[Fe4-S4] and Ni-Ni-[Fe4-S4] clusters in closed and open subunits of acetyl-CoA synthase/carbon monoxide dehydrogenase. Nat Struct Biol (2003) 2.75
CDR3 loop flexibility contributes to the degeneracy of TCR recognition. Nat Immunol (2003) 2.10
The crystal structure of the globular head of complement protein C1q provides a basis for its versatile recognition properties. J Biol Chem (2003) 2.02
Crystal structure of human iron regulatory protein 1 as cytosolic aconitase. Structure (2006) 2.01
Serendipitous discovery and X-ray structure of a human phosphate binding apolipoprotein. Structure (2006) 1.90
A T cell receptor CDR3beta loop undergoes conformational changes of unprecedented magnitude upon binding to a peptide/MHC class I complex. Immunity (2002) 1.79
LdpA: a component of the circadian clock senses redox state of the cell. EMBO J (2005) 1.79
Structure and activation of the C1 complex of complement: unraveling the puzzle. Trends Immunol (2004) 1.59
C1q binds phosphatidylserine and likely acts as a multiligand-bridging molecule in apoptotic cell recognition. J Immunol (2008) 1.59
X-ray crystallographic and computational studies of the O2-tolerant [NiFe]-hydrogenase 1 from Escherichia coli. Proc Natl Acad Sci U S A (2012) 1.57
Structural differences between the ready and unready oxidized states of [NiFe] hydrogenases. J Biol Inorg Chem (2005) 1.47
Manganese superoxide dismutase from human pathogen Clostridium difficile. Amino Acids (2015) 1.41
Visible light-driven H(2) production by hydrogenases attached to dye-sensitized TiO(2) nanoparticles. J Am Chem Soc (2009) 1.41
(IscS-IscU)2 complex structures provide insights into Fe2S2 biogenesis and transfer. Angew Chem Int Ed Engl (2012) 1.37
Engineering of a monomeric and low-glycosylated form of human butyrylcholinesterase: expression, purification, characterization and crystallization. Eur J Biochem (2002) 1.35
Electrochemical definitions of O2 sensitivity and oxidative inactivation in hydrogenases. J Am Chem Soc (2005) 1.33
EPR and Mössbauer spectroscopy of intact mitochondria isolated from Yah1p-depleted Saccharomyces cerevisiae. Biochemistry (2008) 1.33
X-ray structure of the [FeFe]-hydrogenase maturase HydE from Thermotoga maritima. J Biol Chem (2008) 1.33
The role of the maturase HydG in [FeFe]-hydrogenase active site synthesis and assembly. FEBS Lett (2009) 1.26
Biophysical characterization of the iron in mitochondria from Atm1p-depleted Saccharomyces cerevisiae. Biochemistry (2009) 1.23
The difference a Se makes? Oxygen-tolerant hydrogen production by the [NiFeSe]-hydrogenase from Desulfomicrobium baculatum. J Am Chem Soc (2008) 1.15
Biophysical characterization of iron in mitochondria isolated from respiring and fermenting yeast. Biochemistry (2010) 1.12
Unexpected electron transfer mechanism upon AdoMet cleavage in radical SAM proteins. Proc Natl Acad Sci U S A (2009) 1.12
Catalytic mechanism and three-dimensional structure of adenine deaminase. Biochemistry (2011) 1.11
A nonheme high-spin ferrous pool in mitochondria isolated from fermenting Saccharomyces cerevisiae. Biochemistry (2010) 1.09
Kinetic modeling of the assembly, dynamic steady state, and contraction of the FtsZ ring in prokaryotic cytokinesis. PLoS Comput Biol (2008) 1.06
Electrochemical kinetic investigations of the reactions of [FeFe]-hydrogenases with carbon monoxide and oxygen: comparing the importance of gas tunnels and active-site electronic/redox effects. J Am Chem Soc (2009) 1.05
Structural basis of X-ray-induced transient photobleaching in a photoactivatable green fluorescent protein. J Am Chem Soc (2009) 1.05
Electron paramagnetic resonance and Mössbauer spectroscopy of intact mitochondria from respiring Saccharomyces cerevisiae. J Biol Inorg Chem (2007) 1.05
Mixed-valence nickel-iron dithiolate models of the [NiFe]-hydrogenase active site. Inorg Chem (2012) 1.00
Carbon monoxide dehydrogenase reaction mechanism: a likely case of abnormal CO2 insertion to a Ni-H(-) bond. Inorg Chem (2011) 1.00
Electronic states of the O2-tolerant [NiFe] hydrogenase proximal cluster. Proc Natl Acad Sci U S A (2013) 1.00
Mössbauer and EPR study of recombinant acetyl-CoA synthase from Moorella thermoacetica. Biochemistry (2006) 0.99
Crystal structure of tryptophan lyase (NosL): evidence for radical formation at the amino group of tryptophan. Angew Chem Int Ed Engl (2014) 0.99
Principles of sustained enzymatic hydrogen oxidation in the presence of oxygen--the crucial influence of high potential Fe-S clusters in the electron relay of [NiFe]-hydrogenases. J Am Chem Soc (2013) 0.99
A glycyl free radical as the precursor in the synthesis of carbon monoxide and cyanide by the [FeFe]-hydrogenase maturase HydG. FEBS Lett (2010) 0.99
Flexibility of thiamine diphosphate revealed by kinetic crystallographic studies of the reaction of pyruvate-ferredoxin oxidoreductase with pyruvate. Structure (2006) 0.98
Evaluation of multivalent dendrimers based on melamine: kinetics of thiol-disulfide exchange depends on the structure of the dendrimer. J Am Chem Soc (2003) 0.98
The structural plasticity of the proximal [4Fe3S] cluster is responsible for the O2 tolerance of membrane-bound [NiFe] hydrogenases. Angew Chem Int Ed Engl (2013) 0.98
Mathematical model of a cell size checkpoint. PLoS Comput Biol (2010) 0.97
Effect of sodium sulfide on Ni-containing carbon monoxide dehydrogenases. J Am Chem Soc (2004) 0.96
Biophysical investigation of the iron in Aft1-1(up) and Gal-YAH1 Saccharomyces cerevisiae. Biochemistry (2011) 0.95
How light-harvesting semiconductors can alter the bias of reversible electrocatalysts in favor of H2 production and CO2 reduction. J Am Chem Soc (2013) 0.94
Iron content of Saccharomyces cerevisiae cells grown under iron-deficient and iron-overload conditions. Biochemistry (2012) 0.94
The quest for a functional substrate access tunnel in FeFe hydrogenase. Faraday Discuss (2011) 0.94
Inactivation of acetyl-CoA synthase/carbon monoxide dehydrogenase by copper. J Am Chem Soc (2003) 0.94
Catalytic electrochemistry of a [NiFeSe]-hydrogenase on TiO2 and demonstration of its suitability for visible-light driven H2 production. Chem Commun (Camb) (2008) 0.94
Reduction and methyl transfer kinetics of the alpha subunit from acetyl coenzyme a synthase. J Am Chem Soc (2003) 0.93
A QM/MM study of proton transport pathways in a [NiFe] hydrogenase. Proteins (2008) 0.93
Mössbauer and EPR study of iron in vacuoles from fermenting Saccharomyces cerevisiae. Biochemistry (2011) 0.93
Simultaneous measurements of solvent dynamics and functional kinetics in a light-activated enzyme. Biophys J (2009) 0.93
Evidence for a proton transfer network and a required persulfide-bond-forming cysteine residue in Ni-containing carbon monoxide dehydrogenases. Biochemistry (2004) 0.92
Crystallographic evidence for a CO/CO(2) tunnel gating mechanism in the bifunctional carbon monoxide dehydrogenase/acetyl coenzyme A synthase from Moorella thermoacetica. J Biol Inorg Chem (2004) 0.92
The tunnel of acetyl-coenzyme a synthase/carbon monoxide dehydrogenase regulates delivery of CO to the active site. J Am Chem Soc (2005) 0.92
Function of the tunnel in acetylcoenzyme A synthase/carbon monoxide dehydrogenase. J Biol Inorg Chem (2006) 0.92
Structures and energetics of models for the active site of acetyl-coenzyme a synthase: role of distal and proximal metals in catalysis. J Am Chem Soc (2004) 0.91
Genetic construction of truncated and chimeric metalloproteins derived from the alpha subunit of acetyl-CoA synthase from Clostridium thermoaceticum. J Am Chem Soc (2002) 0.91
Low-temperature switching by photoinduced protonation in photochromic fluorescent proteins. Photochem Photobiol Sci (2010) 0.91
Changing iron content of the mouse brain during development. Metallomics (2012) 0.90
Mossbauer evidence for an exchange-coupled {[Fe4S4]1+ Nip1+} A-cluster in isolated alpha subunits of acetyl-coenzyme A synthase/carbon monoxide dehydrogenase. J Am Chem Soc (2008) 0.89
Structure-function relationships in [FeFe]-hydrogenase active site maturation. J Biol Chem (2012) 0.89
Biophysical investigation of the ironome of human jurkat cells and mitochondria. Biochemistry (2012) 0.88
X-ray snapshots of possible intermediates in the time course of synthesis and degradation of protein-bound Fe4S4 clusters. Proc Natl Acad Sci U S A (2013) 0.87
Stopped-Flow Kinetics of Methyl Group Transfer between the Corrinoid-Iron-Sulfur Protein and Acetyl-Coenzyme A Synthase from Clostridium thermoaceticum. J Am Chem Soc (2002) 0.87
Nickel-dependent oligomerization of the alpha subunit of acetyl-coenzyme a synthase/carbon monoxide dehydrogenase. Biochemistry (2007) 0.87
Electrochemical investigations of the interconversions between catalytic and inhibited states of the [FeFe]-hydrogenase from Desulfovibrio desulfuricans. J Am Chem Soc (2006) 0.87
DHR51, the Drosophila melanogaster homologue of the human photoreceptor cell-specific nuclear receptor, is a thiolate heme-binding protein. Biochemistry (2008) 0.87
A framework for whole-cell mathematical modeling. J Theor Biol (2004) 0.86
The structural basis of iron sensing by the human F-box protein FBXL5. Chembiochem (2012) 0.86
The Human Iron-Sulfur Assembly Complex Catalyzes the Synthesis of [2Fe-2S] Clusters on ISCU2 That Can Be Transferred to Acceptor Molecules. Biochemistry (2015) 0.86
Effect of Zn on acetyl coenzyme a synthase: evidence for a conformational change in the alpha subunit during catalysis. J Am Chem Soc (2004) 0.85
Structural bases for the catalytic mechanism of Ni-containing carbon monoxide dehydrogenases. Dalton Trans (2005) 0.85
The lack of synchronization between iron uptake and cell growth leads to iron overload in Saccharomyces cerevisiae during post-exponential growth modes. Biochemistry (2013) 0.84
Identification and preliminary characterization of AcsF, a putative Ni-insertase used in the biosynthesis of acetyl-CoA synthase from Clostridium thermoaceticum. J Inorg Biochem (2003) 0.84
Tyrosine-67 in cytochrome c is a possible apoptotic trigger controlled by hydrogen bonds via a conformational transition. Chem Commun (Camb) (2009) 0.84
Evolutionary alkaline transition in human cytochrome c. J Bioenerg Biomembr (2009) 0.84
Structural and functional insights into polymorphic enzymes of cytochrome P450 2C8. Amino Acids (2010) 0.83
Kinetics of CO insertion and acetyl group transfer steps, and a model of the acetyl-CoA synthase catalytic mechanism. J Am Chem Soc (2006) 0.83
Crystal structure of HydG from Carboxydothermus hydrogenoformans: a trifunctional [FeFe]-hydrogenase maturase. Chembiochem (2014) 0.83
Crystallographic and spectroscopic evidence for high affinity binding of FeEDTA(H2O)- to the periplasmic nickel transporter NikA. J Am Chem Soc (2005) 0.83
Structural characterization of a putative endogenous metal chelator in the periplasmic nickel transporter NikA. Biochemistry (2008) 0.83
Crystallographic studies of [NiFe]-hydrogenase mutants: towards consensus structures for the elusive unready oxidized states. J Biol Inorg Chem (2014) 0.83
Insights into the iron-ome and manganese-ome of Δmtm1 Saccharomyces cerevisiae mitochondria. Metallomics (2013) 0.83
The mechanism for heme to prevent Aβ(1-40) aggregation and its cytotoxicity. J Biol Inorg Chem (2011) 0.82
The protein environment drives selectivity for sulfide oxidation by an artificial metalloenzyme. Chembiochem (2009) 0.82
A novel insight into the heme and NO/CO binding mechanism of the alpha subunit of human soluble guanylate cyclase. J Biol Inorg Chem (2011) 0.82
Biochemistry. A natural choice for activating hydrogen. Science (2008) 0.82
Frataxin Accelerates [2Fe-2S] Cluster Formation on the Human Fe-S Assembly Complex. Biochemistry (2015) 0.82
Crystallographic snapshots of the reaction of aromatic C-H with O(2) catalysed by a protein-bound iron complex. Nat Chem (2010) 0.82
The possible role of an [FeFe]-hydrogenase-like protein in the plant responses to changing atmospheric oxygen levels. J Inorg Biochem (2008) 0.82
Mössbauer study and modeling of iron import and trafficking in human jurkat cells. Biochemistry (2013) 0.82