Published in J Mol Biol on October 01, 2004
MrBUMP: an automated pipeline for molecular replacement. Acta Crystallogr D Biol Crystallogr (2007) 2.16
Purification, crystallization and preliminary crystallographic analysis of deoxyuridine triphosphate nucleotidohydrolase from Arabidopsis thaliana. Acta Crystallogr Sect F Struct Biol Cryst Commun (2007) 0.87
Nucleotide pyrophosphatase employs a P-loop-like motif to enhance catalytic power and NDP/NTP discrimination. Proc Natl Acad Sci U S A (2011) 0.85
Crystal structure of Escherichia coli MazG, the regulator of nutritional stress response. J Biol Chem (2008) 0.85
The 1.25 A resolution structure of phosphoribosyl-ATP pyrophosphohydrolase from Mycobacterium tuberculosis. Acta Crystallogr D Biol Crystallogr (2008) 0.85
Structural and functional insights into DR2231 protein, the MazG-like nucleoside triphosphate pyrophosphohydrolase from Deinococcus radiodurans. J Biol Chem (2011) 0.82
Structure of a putative NTP pyrophosphohydrolase: YP_001813558.1 from Exiguobacterium sibiricum 255-15. Acta Crystallogr Sect F Struct Biol Cryst Commun (2010) 0.81
LenVarDB: database of length-variant protein domains. Nucleic Acids Res (2013) 0.80
The crystal structure of the Leishmania major deoxyuridine triphosphate nucleotidohydrolase in complex with nucleotide analogues, dUMP, and deoxyuridine. J Biol Chem (2011) 0.80
The Type 2 dUTPase of Bacteriophage ϕNM1 Initiates Mobilization of Staphylococcus aureus Bovine Pathogenicity Island 1. J Mol Biol (2015) 0.78
Convergent evolution involving dimeric and trimeric dUTPases in pathogenicity island mobilization. PLoS Pathog (2017) 0.75
Overview of the CCP4 suite and current developments. Acta Crystallogr D Biol Crystallogr (2011) 67.55
REFMAC5 for the refinement of macromolecular crystal structures. Acta Crystallogr D Biol Crystallogr (2011) 39.32
BALBES: a molecular-replacement pipeline. Acta Crystallogr D Biol Crystallogr (2007) 9.29
Intensity statistics in twinned crystals with examples from the PDB. Acta Crystallogr D Biol Crystallogr (2005) 6.47
C-di-GMP: the dawning of a novel bacterial signalling system. Mol Microbiol (2005) 5.41
Algorithms for computing parsimonious evolutionary scenarios for genome evolution, the last universal common ancestor and dominance of horizontal gene transfer in the evolution of prokaryotes. BMC Evol Biol (2003) 4.70
Cyclic di-GMP: the first 25 years of a universal bacterial second messenger. Microbiol Mol Biol Rev (2013) 4.69
Model preparation in MOLREP and examples of model improvement using X-ray data. Acta Crystallogr D Biol Crystallogr (2007) 3.66
PilZ domain is part of the bacterial c-di-GMP binding protein. Bioinformatics (2005) 3.59
Genome sequence of the cyanobacterium Prochlorococcus marinus SS120, a nearly minimal oxyphototrophic genome. Proc Natl Acad Sci U S A (2003) 3.55
An extracellular calcium-binding domain in bacteria with a distant relationship to EF-hands. FEMS Microbiol Lett (2003) 3.45
A genomic update on clostridial phylogeny: Gram-negative spore formers and other misplaced clostridia. Environ Microbiol (2013) 2.63
Structural framework for DNA translocation via the viral portal protein. EMBO J (2007) 2.58
The 2010 Nucleic Acids Research Database Issue and online Database Collection: a community of data resources. Nucleic Acids Res (2009) 2.42
Dimeric dUTPases, HisE, and MazG belong to a new superfamily of all-alpha NTP pyrophosphohydrolases with potential "house-cleaning" functions. J Mol Biol (2005) 2.14
The cyanobacterial genome core and the origin of photosynthesis. Proc Natl Acad Sci U S A (2006) 2.11
A novel type of conserved DNA-binding domain in the transcriptional regulators of the AlgR/AgrA/LytR family. Nucleic Acids Res (2002) 2.10
Amidase domains from bacterial and phage autolysins define a family of gamma-D,L-glutamate-specific amidohydrolases. Trends Biochem Sci (2003) 2.06
Common extracellular sensory domains in transmembrane receptors for diverse signal transduction pathways in bacteria and archaea. J Bacteriol (2003) 1.97
Towards BioDBcore: a community-defined information specification for biological databases. Nucleic Acids Res (2010) 1.97
Global profiling of Shewanella oneidensis MR-1: expression of hypothetical genes and improved functional annotations. Proc Natl Acad Sci U S A (2005) 1.93
House cleaning, a part of good housekeeping. Mol Microbiol (2006) 1.80
Complete genome sequence of the extremely acidophilic methanotroph isolate V4, Methylacidiphilum infernorum, a representative of the bacterial phylum Verrucomicrobia. Biol Direct (2008) 1.78
Planctomycetes and eukaryotes: a case of analogy not homology. Bioessays (2011) 1.76
Phylogenomic analysis of the Giardia intestinalis transcarboxylase reveals multiple instances of domain fusion and fission in the evolution of biotin-dependent enzymes. J Mol Microbiol Biotechnol (2003) 1.76
The 2013 Nucleic Acids Research Database Issue and the online molecular biology database collection. Nucleic Acids Res (2012) 1.66
Genome sequence of the deep-sea gamma-proteobacterium Idiomarina loihiensis reveals amino acid fermentation as a source of carbon and energy. Proc Natl Acad Sci U S A (2004) 1.62
The crystal structure of Trypanosoma cruzi dUTPase reveals a novel dUTP/dUDP binding fold. Structure (2004) 1.59
Inventing the dynamo machine: the evolution of the F-type and V-type ATPases. Nat Rev Microbiol (2007) 1.52
The Protein Information Management System (PiMS): a generic tool for any structural biology research laboratory. Acta Crystallogr D Biol Crystallogr (2011) 1.45
Crystal structure of dihydrodipicolinate synthase (BA3935) from Bacillus anthracis at 1.94 A resolution. Proteins (2006) 1.40
The genome sequence of the psychrophilic archaeon, Methanococcoides burtonii: the role of genome evolution in cold adaptation. ISME J (2009) 1.40
Encapsulated in silica: genome, proteome and physiology of the thermophilic bacterium Anoxybacillus flavithermus WK1. Genome Biol (2008) 1.39
3-D QSAR investigations of the inhibition of Leishmania major farnesyl pyrophosphate synthase by bisphosphonates. J Med Chem (2003) 1.35
Non-homologous isofunctional enzymes: a systematic analysis of alternative solutions in enzyme evolution. Biol Direct (2010) 1.35
The PA14 domain, a conserved all-beta domain in bacterial toxins, enzymes, adhesins and signaling molecules. Trends Biochem Sci (2004) 1.32
Identification and functional analysis of 'hypothetical' genes expressed in Haemophilus influenzae. Nucleic Acids Res (2004) 1.31
Characterization and three-dimensional structures of two distinct bacterial xyloglucanases from families GH5 and GH12. J Biol Chem (2007) 1.30
Understanding how diverse beta-mannanases recognize heterogeneous substrates. Biochemistry (2009) 1.27
The 2014 Nucleic Acids Research Database Issue and an updated NAR online Molecular Biology Database Collection. Nucleic Acids Res (2013) 1.26
Origin of first cells at terrestrial, anoxic geothermal fields. Proc Natl Acad Sci U S A (2012) 1.26
Towards BioDBcore: a community-defined information specification for biological databases. Database (Oxford) (2011) 1.24
The COMBREX project: design, methodology, and initial results. PLoS Biol (2013) 1.24
The DxDxDG motif for calcium binding: multiple structural contexts and implications for evolution. J Mol Biol (2004) 1.24
Evolutionary primacy of sodium bioenergetics. Biol Direct (2008) 1.23
Mona/Gads SH3C binding to hematopoietic progenitor kinase 1 (HPK1) combines an atypical SH3 binding motif, R/KXXK, with a classical PXXP motif embedded in a polyproline type II (PPII) helix. J Biol Chem (2004) 1.21
On the origin of life in the zinc world. 2. Validation of the hypothesis on the photosynthesizing zinc sulfide edifices as cradles of life on Earth. Biol Direct (2009) 1.19
The structure of the oligopeptide-binding protein, AppA, from Bacillus subtilis in complex with a nonapeptide. J Mol Biol (2005) 1.19
Domain closure, substrate specificity and catalysis of D-lactate dehydrogenase from Lactobacillus bulgaricus. J Mol Biol (2002) 1.18
The past and present of sodium energetics: may the sodium-motive force be with you. Biochim Biophys Acta (2008) 1.17
Single domain response regulators: molecular switches with emerging roles in cell organization and dynamics. Curr Opin Microbiol (2009) 1.17
An ATP-binding cassette-type cysteine transporter in Campylobacter jejuni inferred from the structure of an extracytoplasmic solute receptor protein. Mol Microbiol (2005) 1.16
Initial proteome analysis of model microorganism Haemophilus influenzae strain Rd KW20. J Bacteriol (2003) 1.13
The crystal structures of human S100A12 in apo form and in complex with zinc: new insights into S100A12 oligomerisation. J Mol Biol (2009) 1.12
Structural insight into the mechanism of c-di-GMP hydrolysis by EAL domain phosphodiesterases. J Mol Biol (2010) 1.12
Pyridinium-1-yl bisphosphonates are potent inhibitors of farnesyl diphosphate synthase and bone resorption. J Med Chem (2005) 1.12
Conservation of structure and mechanism in primary and secondary transporters exemplified by SiaP, a sialic acid binding virulence factor from Haemophilus influenzae. J Biol Chem (2006) 1.11
In Silico Metabolic Model and Protein Expression of Haemophilus influenzae Strain Rd KW20 in Rich Medium. OMICS (2004) 1.10
The structure of Saccharomyces cerevisiae Met8p, a bifunctional dehydrogenase and ferrochelatase. EMBO J (2002) 1.09
MASE1 and MASE2: two novel integral membrane sensory domains. J Mol Microbiol Biotechnol (2003) 1.09
Telling bacteria: do not LytTR. Structure (2008) 1.09
Globins synthesize the second messenger bis-(3'-5')-cyclic diguanosine monophosphate in bacteria. J Mol Biol (2009) 1.08
Co-evolution of primordial membranes and membrane proteins. Trends Biochem Sci (2009) 1.07
MOLE: a data management application based on a protein production data model. Proteins (2005) 1.04
Structure/function studies on a S-adenosyl-L-methionine-dependent uroporphyrinogen III C methyltransferase (SUMT), a key regulatory enzyme of tetrapyrrole biosynthesis. J Mol Biol (2004) 1.04
Sequence conservation in the chagasin family suggests a common trend in cysteine proteinase binding by unrelated protein inhibitors. Protein Sci (2002) 1.03
Sialic acid mutarotation is catalyzed by the Escherichia coli beta-propeller protein YjhT. J Biol Chem (2007) 1.02
Evaluating the solution from MrBUMP and BALBES. Acta Crystallogr D Biol Crystallogr (2011) 1.02
Structure of components of an intercellular channel complex in sporulating Bacillus subtilis. Proc Natl Acad Sci U S A (2012) 1.02
Cyanobacterial response regulator PatA contains a conserved N-terminal domain (PATAN) with an alpha-helical insertion. Bioinformatics (2006) 1.00
MHC class I bound to an immunodominant Theileria parva epitope demonstrates unconventional presentation to T cell receptors. PLoS Pathog (2010) 0.99
β-Branched acyclic nucleoside analogues as inhibitors of Plasmodium falciparum dUTPase. Bioorg Med Chem (2011) 0.99
Experimental verification of a sequence-based prediction: F(1)F(0)-type ATPase of Vibrio cholerae transports protons, not Na(+) ions. J Bacteriol (2003) 0.99
Diversity of Cyclic Di-GMP-Binding Proteins and Mechanisms. J Bacteriol (2016) 0.99
An enzyme-trap approach allows isolation of intermediates in cobalamin biosynthesis. Nat Chem Biol (2012) 0.98
New structural and functional contexts of the Dx[DN]xDG linear motif: insights into evolution of calcium-binding proteins. PLoS One (2011) 0.98
dUTPase as a platform for antimalarial drug design: structural basis for the selectivity of a class of nucleoside inhibitors. Structure (2005) 0.97
The structure of the genomic Bacillus subtilis dUTPase: novel features in the Phe-lid. Acta Crystallogr D Biol Crystallogr (2010) 0.97
Enzymatic logic of anthrax stealth siderophore biosynthesis: AsbA catalyzes ATP-dependent condensation of citric acid and spermidine. J Am Chem Soc (2007) 0.97
Depletion of dimeric all-alpha dUTPase induces DNA strand breaks and impairs cell cycle progression in Trypanosoma brucei. Int J Biochem Cell Biol (2008) 0.97
Structure of a feruloyl esterase from Aspergillus niger. Acta Crystallogr D Biol Crystallogr (2004) 0.96
Kinetic characterization of squalene synthase from Trypanosoma cruzi: selective inhibition by quinuclidine derivatives. Antimicrob Agents Chemother (2007) 0.96
GIL, a new c-di-GMP-binding protein domain involved in regulation of cellulose synthesis in enterobacteria. Mol Microbiol (2014) 0.95
Structure of a pullulanase from Bacillus acidopullulyticus. Proteins (2009) 0.95
Sentra: a database of signal transduction proteins for comparative genome analysis. Nucleic Acids Res (2006) 0.93
From crystal to structure with CCP4. Acta Crystallogr D Biol Crystallogr (2011) 0.93
Characterization of the N-ATPase, a distinct, laterally transferred Na+-translocating form of the bacterial F-type membrane ATPase. Bioinformatics (2010) 0.92
Sequence analysis and characterization of a novel fibronectin-binding repeat domain from the surface of Streptococcus pneumoniae. OMICS (2004) 0.91
Molecular details of urease inhibition by boric acid: insights into the catalytic mechanism. J Am Chem Soc (2004) 0.91
An [{Fe(mecam)}2]6- bridge in the crystal structure of a ferric enterobactin binding protein. Angew Chem Int Ed Engl (2006) 0.91
Petrobactin biosynthesis: AsbB catalyzes condensation of spermidine with N8-citryl-spermidine and its N1-(3,4-dihydroxybenzoyl) derivative. Chem Commun (Camb) (2008) 0.90
Crystal structure of a 3-oxoacyl-(acylcarrier protein) reductase (BA3989) from Bacillus anthracis at 2.4-A resolution. Proteins (2008) 0.90
Crystal structure of the bacterial YhcH protein indicates a role in sialic acid catabolism. J Bacteriol (2005) 0.90
Intracellular location of the early steps of the isoprenoid biosynthetic pathway in the trypanosomatids Leishmania major and Trypanosoma brucei. Int J Parasitol (2008) 0.90
Structure of a Bacillus halmapalus family 13 alpha-amylase, BHA, in complex with an acarbose-derived nonasaccharide at 2.1 A resolution. Acta Crystallogr D Biol Crystallogr (2005) 0.89
Functional analysis of conserved polar residues in Vc-NhaD, Na+/H+ antiporter of Vibrio cholerae. J Biol Chem (2005) 0.89
The structures of Micrococcus lysodeikticus catalase, its ferryl intermediate (compound II) and NADPH complex. Acta Crystallogr D Biol Crystallogr (2002) 0.89