Published in Structure on January 01, 2002
From genetic footprinting to antimicrobial drug targets: examples in cofactor biosynthetic pathways. J Bacteriol (2002) 4.66
Ribosylnicotinamide kinase domain of NadR protein: identification and implications in NAD biosynthesis. J Bacteriol (2002) 1.20
Microbial NAD metabolism: lessons from comparative genomics. Microbiol Mol Biol Rev (2009) 1.17
Bifunctional NMN adenylyltransferase/ADP-ribose pyrophosphatase: structure and function in bacterial NAD metabolism. Structure (2008) 1.03
Targeting NAD biosynthesis in bacterial pathogens: Structure-based development of inhibitors of nicotinate mononucleotide adenylyltransferase NadD. Chem Biol (2009) 1.01
Structure and mechanism of a eukaryotic FMN adenylyltransferase. J Mol Biol (2009) 0.93
Structure of nicotinic acid mononucleotide adenylyltransferase from Bacillus anthracis. Acta Crystallogr Sect F Struct Biol Cryst Commun (2008) 0.88
Complexes of bacterial nicotinate mononucleotide adenylyltransferase with inhibitors: implication for structure-based drug design and improvement. J Med Chem (2010) 0.85
The puzzle of ligand binding to Corynebacterium ammoniagenes FAD synthetase. J Biol Chem (2009) 0.83
Analysis of Escherichia coli nicotinate mononucleotide adenylyltransferase mutants in vivo and in vitro. BMC Biochem (2005) 0.81
Kinetic and X-ray structural evidence for negative cooperativity in substrate binding to nicotinate mononucleotide adenylyltransferase (NMAT) from Bacillus anthracis. J Mol Biol (2008) 0.80
Targeting NAD+ metabolism in the human malaria parasite Plasmodium falciparum. PLoS One (2014) 0.79
Structure-based functional inference of hypothetical proteins from Mycoplasma hyopneumoniae. J Mol Model (2011) 0.76
Mycobacterial nicotinate mononucleotide adenylyltransferase: structure, mechanism, and implications for drug discovery. J Biol Chem (2015) 0.75
Biogenesis and Homeostasis of Nicotinamide Adenine Dinucleotide Cofactor. Ecosal Plus (2009) 0.75
Engineering Escherichia coli nicotinic acid mononucleotide adenylyltransferase for fully active amidated NAD biosynthesis. Appl Environ Microbiol (2017) 0.75
Nicotinamide mononucleotide adenylyltransferase displays alternate binding modes for nicotinamide nucleotides. Acta Crystallogr D Biol Crystallogr (2015) 0.75
Analysis of drug binding pockets and repurposing opportunities for twelve essential enzymes of ESKAPE pathogens. PeerJ (2017) 0.75
Natural RNA Polymerase Aptamers Regulate Transcription in E. coli. Mol Cell (2017) 0.75
The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes. Nucleic Acids Res (2005) 29.61
Substrate and functional diversity of lysine acetylation revealed by a proteomics survey. Mol Cell (2006) 11.38
A putative RNA-interference-based immune system in prokaryotes: computational analysis of the predicted enzymatic machinery, functional analogies with eukaryotic RNAi, and hypothetical mechanisms of action. Biol Direct (2006) 11.31
The National Microbial Pathogen Database Resource (NMPDR): a genomics platform based on subsystem annotation. Nucleic Acids Res (2006) 11.15
Protein tyrosine phosphatases in the human genome. Cell (2004) 8.09
PROMALS3D: a tool for multiple protein sequence and structure alignments. Nucleic Acids Res (2008) 7.16
AP24534, a pan-BCR-ABL inhibitor for chronic myeloid leukemia, potently inhibits the T315I mutant and overcomes mutation-based resistance. Cancer Cell (2009) 6.97
Cell-free formation of RNA granules: low complexity sequence domains form dynamic fibers within hydrogels. Cell (2012) 6.83
Identification of the acyltransferase that octanoylates ghrelin, an appetite-stimulating peptide hormone. Cell (2008) 5.10
A DNA repair system specific for thermophilic Archaea and bacteria predicted by genomic context analysis. Nucleic Acids Res (2002) 4.39
Lysine acetylation is a highly abundant and evolutionarily conserved modification in Escherichia coli. Mol Cell Proteomics (2008) 4.36
Structural classification of zinc fingers: survey and summary. Nucleic Acids Res (2003) 3.94
The ERGO genome analysis and discovery system. Nucleic Acids Res (2003) 3.89
Genome trees and the tree of life. Trends Genet (2002) 3.79
Identification of a candidate therapeutic autophagy-inducing peptide. Nature (2013) 3.76
Structure prediction for CASP8 with all-atom refinement using Rosetta. Proteins (2009) 3.64
Biochemical identification of Argonaute 2 as the sole protein required for RNA-induced silencing complex activity. Proc Natl Acad Sci U S A (2004) 3.63
AMPylation of Rho GTPases by Vibrio VopS disrupts effector binding and downstream signaling. Science (2008) 3.44
A sequence variation (I148M) in PNPLA3 associated with nonalcoholic fatty liver disease disrupts triglyceride hydrolysis. J Biol Chem (2009) 3.41
PROMALS: towards accurate multiple sequence alignments of distantly related proteins. Bioinformatics (2007) 3.26
PCMA: fast and accurate multiple sequence alignment based on profile consistency. Bioinformatics (2003) 3.23
The lipodystrophy protein seipin is found at endoplasmic reticulum lipid droplet junctions and is important for droplet morphology. Proc Natl Acad Sci U S A (2007) 3.11
Ubiquitin-induced oligomerization of the RNA sensors RIG-I and MDA5 activates antiviral innate immune response. Immunity (2012) 3.07
Experimental and computational assessment of conditionally essential genes in Escherichia coli. J Bacteriol (2006) 2.93
Bcl-2 and Bcl-XL regulate proinflammatory caspase-1 activation by interaction with NALP1. Cell (2007) 2.79
Complete reconstitution of the human coenzyme A biosynthetic pathway via comparative genomics. J Biol Chem (2002) 2.73
Whole proteome analysis of post-translational modifications: applications of mass-spectrometry for proteogenomic annotation. Genome Res (2007) 2.67
EGFR-mediated Beclin 1 phosphorylation in autophagy suppression, tumor progression, and tumor chemoresistance. Cell (2013) 2.63
Atypical angiopoietin-like protein that regulates ANGPTL3. Proc Natl Acad Sci U S A (2012) 2.62
Structural basis for converting a general transcription factor into an operon-specific virulence regulator. Mol Cell (2007) 2.56
Secreted kinase phosphorylates extracellular proteins that regulate biomineralization. Science (2012) 2.55
Genetic defects in surfactant protein A2 are associated with pulmonary fibrosis and lung cancer. Am J Hum Genet (2008) 2.53
An E3 ligase possessing an iron-responsive hemerythrin domain is a regulator of iron homeostasis. Science (2009) 2.49
Evolution of protein structures and functions. Curr Opin Struct Biol (2002) 2.38
Purified NPC1 protein: II. Localization of sterol binding to a 240-amino acid soluble luminal loop. J Biol Chem (2007) 2.34
Three-dimensional structural view of the central metabolic network of Thermotoga maritima. Science (2009) 2.33
Essential genes on metabolic maps. Curr Opin Biotechnol (2006) 2.18
NAD biosynthesis: identification of the tryptophan to quinolinate pathway in bacteria. Chem Biol (2003) 2.11
Structural basis of TLR5-flagellin recognition and signaling. Science (2012) 2.10
Automatic detection of subsystem/pathway variants in genome analysis. Bioinformatics (2005) 2.10
C3PO, an endoribonuclease that promotes RNAi by facilitating RISC activation. Science (2009) 2.04
The conserved plant sterility gene HAP2 functions after attachment of fusogenic membranes in Chlamydomonas and Plasmodium gametes. Genes Dev (2008) 1.95
Fido, a novel AMPylation domain common to fic, doc, and AvrB. PLoS One (2009) 1.92
CASP9 assessment of free modeling target predictions. Proteins (2011) 1.90
Detecting distant homology with Meta-BASIC. Nucleic Acids Res (2004) 1.86
MUMMALS: multiple sequence alignment improved by using hidden Markov models with local structural information. Nucleic Acids Res (2006) 1.85
Side-chain modeling with an optimized scoring function. Protein Sci (2002) 1.84
Sequence and structure classification of kinases. J Mol Biol (2002) 1.84
Structure and lytic activity of a Bacillus anthracis prophage endolysin. J Biol Chem (2005) 1.79
Identification of the two missing bacterial genes involved in thiamine salvage: thiamine pyrophosphokinase and thiamine kinase. J Bacteriol (2004) 1.77
CASP9 target classification. Proteins (2011) 1.75
CASP5 assessment of fold recognition target predictions. Proteins (2003) 1.73
Crystal structure of human riboflavin kinase reveals a beta barrel fold and a novel active site arch. Structure (2003) 1.69
A minimal domain responsible for Munc13 activity. Nat Struct Mol Biol (2005) 1.68
Genetic variation in ANGPTL4 provides insights into protein processing and function. J Biol Chem (2009) 1.64
The HicAB cassette, a putative novel, RNA-targeting toxin-antitoxin system in archaea and bacteria. Bioinformatics (2006) 1.60
PROMALS3D: multiple protein sequence alignment enhanced with evolutionary and three-dimensional structural information. Methods Mol Biol (2014) 1.59
PROMALS3D web server for accurate multiple protein sequence and structure alignments. Nucleic Acids Res (2008) 1.58
NESdb: a database of NES-containing CRM1 cargoes. Mol Biol Cell (2012) 1.57
Phenotypic and genotypic analyses of genetic skin disease through the Online Mendelian Inheritance in Man (OMIM) database. J Invest Dermatol (2009) 1.57
Substrate and docking interactions in serine/threonine protein kinases. Chem Rev (2007) 1.55
Kinetic and structural insights into the mechanism of AMPylation by VopS Fic domain. J Biol Chem (2010) 1.51
Reconstruction of ancestral protein sequences and its applications. BMC Evol Biol (2004) 1.48
Constraint-based model of Shewanella oneidensis MR-1 metabolism: a tool for data analysis and hypothesis generation. PLoS Comput Biol (2010) 1.48
Structural drift: a possible path to protein fold change. Bioinformatics (2004) 1.46
Identification of novel restriction endonuclease-like fold families among hypothetical proteins. Nucleic Acids Res (2005) 1.44
Protein structure prediction for the male-specific region of the human Y chromosome. Proc Natl Acad Sci U S A (2004) 1.43
Prediction of functional specificity determinants from protein sequences using log-likelihood ratios. Bioinformatics (2005) 1.41
A comprehensive update of the sequence and structure classification of kinases. BMC Struct Biol (2005) 1.40
Analysis of CASP8 targets, predictions and assessment methods. Database (Oxford) (2009) 1.38
Structure of human nicotinamide/nicotinic acid mononucleotide adenylyltransferase. Basis for the dual substrate specificity and activation of the oncolytic agent tiazofurin. J Biol Chem (2002) 1.38
Realm of PD-(D/E)XK nuclease superfamily revisited: detection of novel families with modified transitive meta profile searches. BMC Struct Biol (2007) 1.33
SelT, SelW, SelH, and Rdx12: genomics and molecular insights into the functions of selenoproteins of a novel thioredoxin-like family. Biochemistry (2007) 1.31
Accurate statistical model of comparison between multiple sequence alignments. Nucleic Acids Res (2008) 1.28
Profile-profile comparisons by COMPASS predict intricate homologies between protein families. Protein Sci (2003) 1.26
Practical lessons from protein structure prediction. Nucleic Acids Res (2005) 1.25
Site-2 protease regulated intramembrane proteolysis: sequence homologs suggest an ancient signaling cascade. Protein Sci (2005) 1.25
4SCOPmap: automated assignment of protein structures to evolutionary superfamilies. BMC Bioinformatics (2004) 1.25
Unusually rapid evolution of Neuroligin-4 in mice. Proc Natl Acad Sci U S A (2008) 1.25
Remote homology between Munc13 MUN domain and vesicle tethering complexes. J Mol Biol (2009) 1.24
Structural characterization of a human cytosolic NMN/NaMN adenylyltransferase and implication in human NAD biosynthesis. J Biol Chem (2003) 1.24
Discrete-continuous duality of protein structure space. Curr Opin Struct Biol (2009) 1.24
Inhibition of fatty-acid synthase induces caspase-8-mediated tumor cell apoptosis by up-regulating DDIT4. J Biol Chem (2008) 1.23
Protein domain of unknown function DUF1023 is an alpha/beta hydrolase. Proteins (2005) 1.23
PROMALS web server for accurate multiple protein sequence alignments. Nucleic Acids Res (2007) 1.20
Evolution of the regulators of G-protein signaling multigene family in mouse and human. Genomics (2002) 1.18
PROCAIN: protein profile comparison with assisting information. Nucleic Acids Res (2009) 1.17
Central carbon metabolism in the progression of mammary carcinoma. Breast Cancer Res Treat (2007) 1.16
COMPASS server for remote homology inference. Nucleic Acids Res (2007) 1.16
Sequence and structural analyses of nuclear export signals in the NESdb database. Mol Biol Cell (2012) 1.15
Longin-like folds identified in CHiPS and DUF254 proteins: vesicle trafficking complexes conserved in eukaryotic evolution. Protein Sci (2006) 1.15
Beclin 2 functions in autophagy, degradation of G protein-coupled receptors, and metabolism. Cell (2013) 1.14
Searching for three-dimensional secondary structural patterns in proteins with ProSMoS. Bioinformatics (2007) 1.14
Concerted regulation of myofiber-specific gene expression and muscle performance by the transcriptional repressor Sox6. Proc Natl Acad Sci U S A (2011) 1.13
CREST--a large and diverse superfamily of putative transmembrane hydrolases. Biol Direct (2011) 1.12
PALSSE: a program to delineate linear secondary structural elements from protein structures. BMC Bioinformatics (2005) 1.12
Succination of Keap1 and activation of Nrf2-dependent antioxidant pathways in FH-deficient papillary renal cell carcinoma type 2. Cancer Cell (2011) 1.12
Structurally analogous proteins do exist! Structure (2004) 1.12