Aravind L. Iyer
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Evolutionary biologist
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Aravind L. Iyerbiology Degrees
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Evolutionary Biology
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Biology
Aravind L. Iyer's Degrees
- PhD Evolutionary Biology University of California, Berkeley
- Masters Biology Stanford University
- Bachelors Biotechnology University of California, Berkeley
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Why Is Aravind L. Iyer Influential?
(Suggest an Edit or Addition)According to Wikipedia, Aravind L. Iyer is an evolutionary biologist at the National Center for Biotechnology Information in Bethesda, Maryland, United States. Since 2002, he has been Principal Investigator of the Computational Biology Branch. In his research publications he goes by the name of L. Aravind. He was brought up for the most part in Pune. He obtained his master's degree in Biotechnology and subsequently moved to the Texas A&M University to eventually complete his PhD there in December 1999.
Aravind L. Iyer's Published Works
Number of citations in a given year to any of this author's works
Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author
Published Works
- Initial sequencing and analysis of the human genome. (2001) (15222)
- Conversion of 5-Methylcytosine to 5-Hydroxymethylcytosine in Mammalian DNA by MLL Partner TET1 (2009) (4965)
- AAA+: A class of chaperone-like ATPases associated with the assembly, operation, and disassembly of protein complexes. (1999) (1807)
- De-ubiquitination and ubiquitin ligase domains of A20 downregulate NF-κB signalling (2004) (1736)
- Genome sequence of an obligate intracellular pathogen of humans: Chlamydia trachomatis. (1998) (1603)
- Bacterial rhodopsin: evidence for a new type of phototrophy in the sea. (2000) (1382)
- Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements. (2001) (1287)
- Impaired hydroxylation of 5-methylcytosine in myeloid cancers with mutant TET2 (2010) (1221)
- Horizontal gene transfer in prokaryotes: quantification and classification. (2001) (1152)
- Classification and evolution of P-loop GTPases and related ATPases. (2002) (1087)
- Identification of paracaspases and metacaspases: two ancient families of caspase-like proteins, one of which plays a key role in MALT lymphoma. (2000) (1077)
- Role of Rpn11 Metalloprotease in Deubiquitination and Degradation by the 26S Proteasome (2002) (1037)
- Genome sequence of the radioresistant bacterium Deinococcus radiodurans R1. (1999) (919)
- Complete Genome Sequence of the Apicomplexan, Cryptosporidium parvum (2004) (903)
- Structure and evolution of transcriptional regulatory networks. (2004) (811)
- Evolutionary history and higher order classification of AAA+ ATPases. (2004) (770)
- TETonic shift: biological roles of TET proteins in DNA demethylation and transcription (2013) (753)
- Role of Predicted Metalloprotease Motif of Jab1/Csn5 in Cleavage of Nedd8 from Cul1 (2002) (711)
- Genome of the Extremely Radiation-Resistant Bacterium Deinococcus radiodurans Viewed from the Perspective of Comparative Genomics (2001) (680)
- The GAF domain: an evolutionary link between diverse phototransducing proteins. (1997) (594)
- Conserved domains in DNA repair proteins and evolution of repair systems. (1999) (554)
- Evolutionary genomics of nucleo-cytoplasmic large DNA viruses. (2006) (539)
- The many faces of the helix-turn-helix domain: transcription regulation and beyond. (2005) (526)
- SAP - a putative DNA-binding motif involved in chromosomal organization. (2000) (516)
- Common Origin of Four Diverse Families of Large Eukaryotic DNA Viruses (2001) (508)
- Comparative genomics and evolution of proteins involved in RNA metabolism. (2002) (499)
- DNA Methylation on N6-Adenine in C. elegans (2015) (491)
- Chromosome 2 sequence of the human malaria parasite Plasmodium falciparum. (1998) (482)
- The DNA-repair protein AlkB, EGL-9, and leprecan define new families of 2-oxoglutarate- and iron-dependent dioxygenases (2001) (467)
- AT-hook motifs identified in a wide variety of DNA-binding proteins. (1998) (466)
- The HD domain defines a new superfamily of metal-dependent phosphohydrolases. (1998) (457)
- Gleaning non-trivial structural, functional and evolutionary information about proteins by iterative database searches. (1999) (446)
- Comparison of the complete protein sets of worm and yeast: orthology and divergence. (1998) (442)
- Discovery of the principal specific transcription factors of Apicomplexa and their implication for the evolution of the AP2-integrase DNA binding domains (2005) (440)
- The role of lineage-specific gene family expansion in the evolution of eukaryotes. (2002) (439)
- Unification of Cas protein families and a simple scenario for the origin and evolution of CRISPR-Cas systems (2011) (423)
- STAND, a class of P-loop NTPases including animal and plant regulators of programmed cell death: multiple, complex domain architectures, unusual phyletic patterns, and evolution by horizontal gene transfer. (2004) (420)
- The cytoplasmic helical linker domain of receptor histidine kinase and methyl-accepting proteins is common to many prokaryotic signalling proteins. (1999) (418)
- Evolution of aminoacyl-tRNA synthetases--analysis of unique domain architectures and phylogenetic trees reveals a complex history of horizontal gene transfer events. (1999) (413)
- The domains of death: evolution of the apoptosis machinery. (1999) (408)
- START: a lipid-binding domain in StAR, HD-ZIP and signalling proteins. (1999) (406)
- The U box is a modified RING finger — a common domain in ubiquitination (2000) (402)
- Polymorphic toxin systems: Comprehensive characterization of trafficking modes, processing, mechanisms of action, immunity and ecology using comparative genomics (2012) (395)
- Origin and evolution of eukaryotic apoptosis: the bacterial connection (2002) (392)
- Construction and analysis of bacterial artificial chromosome libraries from a marine microbial assemblage. (2000) (373)
- PAS: a multifunctional domain family comes to light (1997) (370)
- Evolutionary genomics of the HAD superfamily: understanding the structural adaptations and catalytic diversity in a superfamily of phosphoesterases and allied enzymes. (2006) (367)
- Prediction of novel families of enzymes involved in oxidative and other complex modifications of bases in nucleic acids (2009) (361)
- A DNA repair system specific for thermophilic Archaea and bacteria predicted by genomic context analysis. (2002) (356)
- Toprim--a conserved catalytic domain in type IA and II topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins. (1998) (356)
- Potential for Chemolithoautotrophy Among Ubiquitous Bacteria Lineages in the Dark Ocean (2011) (345)
- Evolutionary history, structural features and biochemical diversity of the NlpC/P60 superfamily of enzymes (2003) (342)
- Apoptotic molecular machinery: vastly increased complexity in vertebrates revealed by genome comparisons. (2001) (340)
- Plasmodium Biology Genomic Gleanings (2003) (334)
- Did DNA replication evolve twice independently? (1999) (333)
- Eukaryotic signalling domain homologues in archaea and bacteria. Ancient ancestry and horizontal gene transfer. (1999) (332)
- Novel families of putative protein kinases in bacteria and archaea: evolution of the "eukaryotic" protein kinase superfamily. (1998) (326)
- Modulation of TET2 expression and 5-methylcytosine oxidation by the CXXC domain protein IDAX (2013) (323)
- Evidence for massive gene exchange between archaeal and bacterial hyperthermophiles. (1998) (323)
- DNA polymerase beta-like nucleotidyltransferase superfamily: identification of three new families, classification and evolutionary history. (1999) (322)
- IMPALA: matching a protein sequence against a collection of PSI-BLAST-constructed position-specific score matrices (1999) (313)
- Comparative genomics of the FtsK-HerA superfamily of pumping ATPases: implications for the origins of chromosome segregation, cell division and viral capsid packaging. (2004) (309)
- The NACHT family - a new group of predicted NTPases implicated in apoptosis and MHC transcription activation. (2000) (308)
- Lineage-specific loss and divergence of functionally linked genes in eukaryotes. (2000) (306)
- Prokaryotic homologs of the eukaryotic DNA-end-binding protein Ku, novel domains in the Ku protein and prediction of a prokaryotic double-strand break repair system. (2001) (295)
- SURVEY AND SUMMARY: holliday junction resolvases and related nucleases: identification of new families, phyletic distribution and evolutionary trajectories. (2000) (294)
- The Impact of Comparative Genomics on Our Understanding of Evolution (2000) (290)
- The complete genome of hyperthermophile Methanopyrus kandleri AV19 and monophyly of archaeal methanogens (2002) (289)
- Diversification and spectral tuning in marine proteorhodopsins (2003) (287)
- A Database of Bacterial Lipoproteins (DOLOP) with Functional Assignments to Predicted Lipoproteins (2006) (287)
- Comparative genomics of the Archaea (Euryarchaeota): evolution of conserved protein families, the stable core, and the variable shell. (1999) (286)
- Evolution and classification of P-loop kinases and related proteins. (2003) (285)
- Evolutionary dynamics of prokaryotic transcriptional regulatory networks. (2006) (278)
- Evolution and diversification of lamprey antigen receptors: evidence for involvement of an AID-APOBEC family cytosine deaminase (2007) (272)
- Multiple transporters associated with malaria parasite responses to chloroquine and quinine (2003) (271)
- Regulatory potential, phyletic distribution and evolution of ancient, intracellular small-molecule-binding domains. (2001) (268)
- The catalytic domain of the P-type ATPase has the haloacid dehalogenase fold. (1998) (268)
- The STAS domain — a link between anion transporters and antisigma-factor antagonists (2000) (265)
- DNA-binding proteins and evolution of transcription regulation in the archaea. (1999) (265)
- Prediction of the archaeal exosome and its connections with the proteasome and the translation and transcription machineries by a comparative-genomic approach. (2001) (263)
- Genome of Rhodnius prolixus, an insect vector of Chagas disease, reveals unique adaptations to hematophagy and parasite infection (2015) (260)
- A novel superfamily of predicted cysteine proteases from eukaryotes, viruses and Chlamydia pneumoniae. (2000) (259)
- Interplay between gene expression noise and regulatory network architecture. (2012) (256)
- Identification of the prokaryotic ligand-gated ion channels and their implications for the mechanisms and origins of animal Cys-loop ion channels (2004) (251)
- Comparative genomics of transcription factors and chromatin proteins in parasitic protists and other eukaryotes. (2008) (250)
- An antisense RNA controls synthesis of an SOS-induced toxin evolved from an antitoxin (2007) (247)
- Phosphoesterase domains associated with DNA polymerases of diverse origins. (1998) (247)
- Comparative Genomics, Evolution and Origins of the Nuclear Envelope and Nuclear Pore Complex (2004) (244)
- Comprehensive analysis of combinatorial regulation using the transcriptional regulatory network of yeast. (2006) (243)
- Origin and evolution of the archaeo-eukaryotic primase superfamily and related palm-domain proteins: structural insights and new members (2005) (243)
- Evolutionary connection between the catalytic subunits of DNA-dependent RNA polymerases and eukaryotic RNA-dependent RNA polymerases and the origin of RNA polymerases (2003) (242)
- New connections in the prokaryotic toxin-antitoxin network: relationship with the eukaryotic nonsense-mediated RNA decay system (2003) (237)
- Discovery of Novel DENN Proteins: Implications for the Evolution of Eukaryotic Intracellular Membrane Structures and Human Disease (2012) (232)
- Malaria Parasite clag3 Genes Determine Channel-Mediated Nutrient Uptake by Infected Red Blood Cells (2011) (219)
- PfSETvs methylation of histone H3K36 represses virulence genes in Plasmodium falciparum (2013) (217)
- Adaptations of the helix‐grip fold for ligand binding and catalysis in the START domain superfamily (2001) (216)
- Comparative analysis of apicomplexa and genomic diversity in eukaryotes. (2004) (214)
- The WWE domain: a common interaction module in protein ubiquitination and ADP ribosylation. (2001) (212)
- Evolution of cell-cell signaling in animals: did late horizontal gene transfer from bacteria have a role? (2004) (209)
- The HORMA domain: a common structural denominator in mitotic checkpoints, chromosome synapsis and DNA repair. (1998) (203)
- Comprehensive analysis of the HEPN superfamily: identification of novel roles in intra-genomic conflicts, defense, pathogenesis and RNA processing (2013) (201)
- The bacterial replicative helicase DnaB evolved from a RecA duplication. (2000) (191)
- Human and mouse homologs of Escherichia coli DinB (DNA polymerase IV), members of the UmuC/DinB superfamily. (1999) (190)
- Fold prediction and evolutionary analysis of the POZ domain: structural and evolutionary relationship with the potassium channel tetramerization domain. (1999) (189)
- Classification and evolutionary history of the single-strand annealing proteins, RecT, Redβ, ERF and RAD52 (2002) (185)
- An evolutionary classification of the metallo-beta-lactamase fold proteins (1998) (185)
- Novel Predicted RNA-Binding Domains Associated with the Translation Machinery (1999) (182)
- Cache - a signaling domain common to animal Ca(2+)-channel subunits and a class of prokaryotic chemotaxis receptors. (2000) (181)
- Comparative Genomic Analysis of Archaeal Genotypic Variants in a Single Population and in Two Different Oceanic Provinces (2002) (180)
- Integration of Word Meaning and World Knowledge in Language Comprehension (178)
- A COMMUNITY OF ANTS , FUNGI , AND BACTERIA : A Multilateral Approach to Studying Symbiosis (2005) (177)
- Natural history of eukaryotic DNA methylation systems. (2011) (176)
- A superfamily of archaeal, bacterial, and eukaryotic proteins homologous to animal transglutaminases (1999) (174)
- Ancient conserved domains shared by animal soluble guanylyl cyclases and bacterial signaling proteins (2003) (168)
- A novel immunity system for bacterial nucleic acid degrading toxins and its recruitment in various eukaryotic and DNA viral systems (2011) (168)
- G-patch: a new conserved domain in eukaryotic RNA-processing proteins and type D retroviral polyproteins. (1999) (165)
- Classification of the caspase–hemoglobinase fold: Detection of new families and implications for the origin of the eukaryotic separins (2002) (165)
- Guilt by association: contextual information in genome analysis. (2000) (165)
- Genomic analysis reveals a tight link between transcription factor dynamics and regulatory network architecture (2009) (158)
- The natural history of the WRKY–GCM1 zinc fingers and the relationship between transcription factors and transposons (2006) (158)
- Molecular Factors and Biochemical Pathways Induced by Febrile Temperature in Intraerythrocytic Plasmodium falciparum Parasites (2007) (157)
- The BED finger, a novel DNA-binding domain in chromatin-boundary-element-binding proteins and transposases. (2000) (156)
- A novel family of predicted phosphoesterases includes Drosophila prune protein and bacterial RecJ exonuclease. (1998) (155)
- The GOLD domain, a novel protein module involved in Golgi function and secretion (2002) (155)
- Towards understanding the first genome sequence of a crenarchaeon by genome annotation using clusters of orthologous groups of proteins (COGs) (2000) (151)
- Comparative genomic analyses reveal a vast, novel network of nucleotide-centric systems in biological conflicts, immunity and signaling (2015) (150)
- Emergence of diverse biochemical activities in evolutionarily conserved structural scaffolds of proteins. (2003) (147)
- SPOUT: a class of methyltransferases that includes spoU and trmD RNA methylase superfamilies, and novel superfamilies of predicted prokaryotic RNA methylases. (2002) (146)
- Rickettsiae and Chlamydiae: evidence of horizontal gene transfer and gene exchange. (1999) (145)
- The prokaryotic antecedents of the ubiquitin-signaling system and the early evolution of ubiquitin-like β-grasp domains (2006) (145)
- CARF and WYL domains: ligand-binding regulators of prokaryotic defense systems (2014) (144)
- Trends in protein evolution inferred from sequence and structure analysis. (2002) (142)
- Small but versatile: the extraordinary functional and structural diversity of the β-grasp fold (2007) (140)
- Monophyly of class I aminoacyl tRNA synthetase, USPA, ETFP, photolyase, and PP‐ATPase nucleotide‐binding domains: implications for protein evolution in the RNA world (2002) (139)
- The two faces of Alba: the evolutionary connection between proteins participating in chromatin structure and RNA metabolism (2003) (139)
- A hemolytic pigment of Group B Streptococcus allows bacterial penetration of human placenta (2013) (137)
- The fukutin protein family – predicted enzymes modifying cell-surface molecules (1999) (137)
- The CHASE domain: a predicted ligand-binding module in plant cytokinin receptors and other eukaryotic and bacterial receptors. (2001) (136)
- The signaling helix: a common functional theme in diverse signaling proteins (2006) (134)
- Molecular cloning, expression, and structural prediction of deoxyhypusine hydroxylase: a HEAT-repeat-containing metalloenzyme. (2006) (133)
- Prune cAMP phosphodiesterase binds nm23-H1 and promotes cancer metastasis. (2004) (132)
- Detection of novel members, structure–function analysis and evolutionary classification of the 2H phosphoesterase superfamily (2002) (131)
- Homologues of 26S proteasome subunits are regulators of transcription and translation (1998) (130)
- A specialized version of the HD hydrolase domain implicated in signal transduction. (1999) (130)
- Saccharomyces cerevisiae SMT4 encodes an evolutionarily conserved protease with a role in chromosome condensation regulation. (2001) (129)
- Adenine methylation in eukaryotes: Apprehending the complex evolutionary history and functional potential of an epigenetic modification (2015) (126)
- Live virus-free or die: coupling of antivirus immunity and programmed suicide or dormancy in prokaryotes (2012) (125)
- The NYN Domains: Novel Predicted RNAses with a PIN Domain-Like Fold (2006) (124)
- Evolution of the deaminase fold and multiple origins of eukaryotic editing and mutagenic nucleic acid deaminases from bacterial toxin systems (2011) (124)
- A Multidomain Adhesion Protein Family Expressed in Plasmodium falciparum Is Essential for Transmission to the Mosquito (2004) (123)
- The alpha/beta fold uracil DNA glycosylases: a common origin with diverse fates (2000) (122)
- A conserved NAD+ binding pocket that regulates protein-protein interactions during aging (2017) (121)
- Chitinases of the Avian Malaria Parasite Plasmodium gallinaceum, a Class of Enzymes Necessary for Parasite Invasion of the Mosquito Midgut* (2000) (120)
- MutL homologs in restriction-modification systems and the origin of eukaryotic MORC ATPases (2008) (111)
- Identification of novel families and classification of the C2 domain superfamily elucidate the origin and evolution of membrane targeting activities in eukaryotes. (2010) (111)
- MORC2 signaling integrates phosphorylation-dependent, ATPase-coupled chromatin remodeling during the DNA damage response. (2012) (110)
- Evolution of bacterial RNA polymerase: implications for large-scale bacterial phylogeny, domain accretion, and horizontal gene transfer. (2004) (109)
- Identification of the m6Am Methyltransferase PCIF1 Reveals the Location and Functions of m6Am in the Transcriptome. (2019) (109)
- Erratum: Initial sequencing and analysis of the human genome: International Human Genome Sequencing Consortium (Nature (2001) 409 (860-921)) (2001) (106)
- The ubiquitous yybP-ykoY riboswitch is a manganese-responsive regulatory element. (2015) (106)
- Extensive domain shuffling in transcription regulators of DNA viruses and implications for the origin of fungal APSES transcription factors (2002) (105)
- A bipolar DNA helicase gene, herA, clusters with rad50, mre11 and nurA genes in thermophilic archaea. (2004) (105)
- The SWIRM domain: a conserved module found in chromosomal proteins points to novel chromatin-modifying activities (2002) (105)
- Identification of Paracaspases and Metacaspases (2000) (105)
- Structure of a lamprey variable lymphocyte receptor in complex with a protein antigen (2009) (105)
- Themis is a member of a new metazoan gene family and is required for completion of thymocyte positive selection (2009) (104)
- Eukaryote-specific domains in translation initiation factors: implications for translation regulation and evolution of the translation system. (2000) (104)
- Anatomy of the E2 ligase fold: implications for enzymology and evolution of ubiquitin/Ub-like protein conjugation. (2008) (102)
- The mechanism of force transmission at bacterial focal adhesion complexes (2016) (102)
- The HIRAN Domain and Recruitment of Chromatin Remodeling and Repair activities to Damaged DNA (2006) (98)
- Novel Predicted Peptidases with a Potential Role in the Ubiquitin Signaling Pathway (2004) (97)
- Unraveling the biochemistry and provenance of pupylation: a prokaryotic analog of ubiquitination (2008) (96)
- Novel eukaryotic enzymes modifying cell-surface biopolymers (2010) (96)
- Scores of RINGS but No PHDs in Ubiquitin Signaling (2003) (95)
- Computational identification of novel biochemical systems involved in oxidation, glycosylation and other complex modifications of bases in DNA (2013) (95)
- Comparative genomics and evolutionary trajectories of viral ATP dependent DNA-packaging systems. (2007) (95)
- Protein fold recognition using sequence profiles and its application in structural genomics. (2000) (95)
- Bacterial-type DNA holliday junction resolvases in eukaryotic viruses. (2000) (94)
- The natural history of ADP-ribosyltransferases and the ADP-ribosylation system. (2015) (93)
- Comparative genomics and structural biology of the molecular innovations of eukaryotes. (2006) (93)
- Sec14p-like domains in NF1 and Dbl-like proteins indicate lipid regulation of Ras and Rho signaling (1999) (92)
- Amidoligases with ATP-grasp, glutamine synthetase-like and acetyltransferase-like domains: synthesis of novel metabolites and peptide modifications of proteins. (2009) (90)
- Proteasomal control of cytokinin synthesis protects Mycobacterium tuberculosis against nitric oxide. (2015) (88)
- Discovering functional linkages and uncharacterized cellular pathways using phylogenetic profile comparisons: a comprehensive assessment (2007) (87)
- Natural history of the E1‐like superfamily: Implication for adenylation, sulfur transfer, and ubiquitin conjugation (2009) (86)
- YjeQ, an essential, conserved, uncharacterized protein from Escherichia coli, is an unusual GTPase with circularly permuted G-motifs and marked burst kinetics. (2002) (85)
- Application of comparative genomics in the identification and analysis of novel families of membrane-associated receptors in bacteria (2003) (83)
- THUMP--a predicted RNA-binding domain shared by 4-thiouridine, pseudouridine synthases and RNA methylases. (2001) (83)
- Dynein light chains of the Roadblock/LC7 group belong to an ancient protein superfamily implicated in NTPase regulation (2000) (82)
- Vms1/Ankzf1 peptidyl-tRNA hydrolase releases nascent chains from stalled ribosomes (2018) (81)
- Comparative Genome Analysis of the Pathogenic Spirochetes Borrelia burgdorferi and Treponema pallidum (2000) (79)
- BEN: a novel domain in chromatin factors and DNA viral proteins (2008) (79)
- Novel conserved domains in proteins with predicted roles in eukaryotic cell-cycle regulation, decapping and RNA stability (2004) (78)
- Bacterial GRAS domain proteins throw new light on gibberellic acid response mechanisms (2012) (78)
- O-GlcNAcylation destabilizes the active tetrameric PKM2 to promote the Warburg effect (2017) (77)
- Ter-dependent stress response systems: novel pathways related to metal sensing, production of a nucleoside-like metabolite, and DNA-processing. (2012) (76)
- The catalytic domains of thiamine triphosphatase and CyaB-like adenylyl cyclase define a novel superfamily of domains that bind organic phosphates (2002) (75)
- The HARE-HTH and associated domains (2012) (75)
- PSI-BLAST tutorial. (2007) (74)
- EFCAB7 and IQCE regulate hedgehog signaling by tethering the EVC-EVC2 complex to the base of primary cilia. (2014) (73)
- SWIM, a novel Zn-chelating domain present in bacteria, archaea and eukaryotes. (2002) (73)
- Uncovering a hidden distributed architecture behind scale-free transcriptional regulatory networks. (2006) (70)
- Structure of the Plasmodium 6-cysteine s48/45 domain (2012) (69)
- TRAM, a predicted RNA-binding domain, common to tRNA uracil methylation and adenine thiolation enzymes. (2001) (68)
- A structural basis for antigen recognition by the T cell-like lymphocytes of sea lamprey (2010) (66)
- Novel Immunoglobulin Domain Proteins Provide Insights into Evolution and Pathogenesis of SARS-CoV-2-Related Viruses (2020) (66)
- OST-HTH: a novel predicted RNA-binding domain (2010) (66)
- Clinical and molecular aspects of malaria fever. (2011) (65)
- Gene flow and biological conflict systems in the origin and evolution of eukaryotes (2012) (65)
- Myosin 1G Is an Abundant Class I Myosin in Lymphocytes Whose Localization at the Plasma Membrane Depends on Its Ancient Divergent Pleckstrin Homology (PH) Domain (Myo1PH)* (2010) (65)
- MOSC domains: ancient, predicted sulfur-carrier domains, present in diverse metal-sulfur cluster biosynthesis proteins including Molybdenum cofactor sulfurases. (2002) (64)
- A natural classification of ribonucleases. (2001) (64)
- CRISPR Screens Uncover Genes that Regulate Target Cell Sensitivity to the Morphogen Sonic Hedgehog (2018) (64)
- The many faces of the helix-turn-helix domain : Transcription regulation and beyond q (2005) (63)
- Centrins, Cell Cycle Regulation Proteins in Human Malaria Parasite Plasmodium falciparum* (2008) (63)
- The DOMON domains are involved in heme and sugar recognition (2007) (63)
- A colipase fold in the carboxy-terminal domain of the Wnt antagonists – the Dickkopfs (1998) (63)
- The C. elegans Polycomb gene SOP-2 encodes an RNA binding protein. (2004) (62)
- Comparative genomics of protists: new insights into the evolution of eukaryotic signal transduction and gene regulation. (2007) (61)
- Interplay between network structures, regulatory modes and sensing mechanisms of transcription factors in the transcriptional regulatory network of E. coli. (2007) (60)
- CRISPR Screens Uncover Genes that Regulate Target Cell Sensitivity to the Morphogen Sonic Hedgehog. (2018) (59)
- The Shwachman-Bodian-Diamond syndrome gene encodes an RNA-binding protein that localizes to the pseudopod of Dictyostelium amoebae during chemotaxis (2006) (59)
- The Scaffolding Protein Synapse-Associated Protein 97 Is Required for Enhanced Signaling Through Isotype-Switched IgG Memory B Cell Receptors (2012) (58)
- Functional diversification of the RING finger and other binuclear treble clef domains in prokaryotes and the early evolution of the ubiquitin system. (2011) (58)
- The conserved protein SZY-20 opposes the Plk4-related kinase ZYG-1 to limit centrosome size. (2008) (58)
- RNA damage in biological conflicts and the diversity of responding RNA repair systems (2016) (57)
- Novel autoproteolytic and DNA-damage sensing components in the bacterial SOS response and oxidized methylcytosine-induced eukaryotic DNA demethylation systems (2013) (57)
- Quod erat demonstrandum? The mystery of experimental validation of apparently erroneous computational analyses of protein sequences (2001) (57)
- The ATP-cone: an evolutionarily mobile, ATP-binding regulatory domain. (2000) (57)
- parvum Cryptosporidium Complete Genome Sequence of the Apicomplexan , (2012) (56)
- Identification of novel components of NAD-utilizing metabolic pathways and prediction of their biochemical functions. (2012) (55)
- Evolutionary connections between bacterial and eukaryotic signaling systems: a genomic perspective. (2003) (55)
- Adhesion molecules and other secreted host-interaction determinants in Apicomplexa: insights from comparative genomics. (2007) (55)
- HPC2 and ubinuclein define a novel family of histone chaperones conserved throughout eukaryotes† †Electronic supplementary information (ESI) available: Text alignments and supporting information. See DOI: 10.1039/b816424j Click here for additional data file. (2009) (55)
- New perspectives on the diversification of the RNA interference system: insights from comparative genomics and small RNA sequencing (2014) (55)
- Assembly , Operation , and Disassembly of Protein Complexes : A Class of Chaperone-Like ATPases Associated with the + AAA (1999) (55)
- Diversity and evolution of chromatin proteins encoded by DNA viruses. (2010) (54)
- Natural history of the eukaryotic chromatin protein methylation system. (2011) (54)
- Structural basis of oligomerization in septin-like GTPase of immunity-associated protein 2 (GIMAP2) (2010) (54)
- The PRC-barrel: a widespread, conserved domain shared by photosynthetic reaction center subunits and proteins of RNA metabolism (2002) (53)
- Comparative genomics uncovers novel structural and functional features of the heterotrimeric GTPase signaling system. (2011) (53)
- A novel family of P-loop NTPases with an unusual phyletic distribution and transmembrane segments inserted within the NTPase domain (2004) (53)
- Identification of the m 6 Am Methyltransferase PCIF1 Reveals the Location and Functions of m 6 Am in the Transcriptome (2018) (51)
- HutC/FarR-like bacterial transcription factors of the GntR family contain a small molecule-binding domain of the chorismate lyase fold. (2003) (50)
- Peptide-N-glycanases and DNA repair proteins, Xp-C/Rad4, are, respectively, active and inactivated enzymes sharing a common transglutaminase fold. (2001) (49)
- Origin of multicellular eukaryotes - insights from proteome comparisons. (1999) (48)
- Insights from the architecture of the bacterial transcription apparatus. (2012) (48)
- Diversification of AID/APOBEC-like deaminases in metazoa: multiplicity of clades and widespread roles in immunity (2018) (47)
- Predicted class-I aminoacyl tRNA synthetase-like proteins in non-ribosomal peptide synthesis (2010) (47)
- Filling out the structural map of the NTF2-like superfamily (2013) (47)
- Adaptive evolution by optimizing expression levels in different environments. (2006) (46)
- THEMIS enhances TCR signaling and enables positive selection by selective inhibition of SHP-1 (2017) (46)
- The natural history of ubiquitin and ubiquitin-related domains. (2012) (46)
- Methods to reconstruct and compare transcriptional regulatory networks. (2009) (46)
- Genome sequencing and assessment of plant growth-promoting properties of a Serratia marcescens strain isolated from vermicompost (2018) (46)
- Origin and evolution of peptide-modifying dioxygenases and identification of the wybutosine hydroxylase/hydroperoxidase (2010) (45)
- Second Family of Histone Deacetylases (1998) (45)
- The ASCH superfamily: novel domains with a fold related to the PUA domain and a potential role in RNA metabolism (2006) (45)
- Analysis of DBC1 and its homologs suggests a potential mechanism for regulation of Sirtuin domain deacetylases by NAD metabolites (2008) (44)
- Two novel PIWI families: roles in inter-genomic conflicts in bacteria and Mediator-dependent modulation of transcription in eukaryotes (2013) (43)
- Novel transglutaminase-like peptidase and C2 domains elucidate the structure, biogenesis and evolution of the ciliary compartment (2012) (43)
- Presence of a classical RRM-fold palm domain in Thg1-type 3'- 5'nucleic acid polymerases and the origin of the GGDEF and CRISPR polymerase domains (2010) (42)
- Resilience of biochemical activity in protein domains in the face of structural divergence. (2014) (42)
- Lineage-specific expansions of TET/JBP genes and a new class of DNA transposons shape fungal genomic and epigenetic landscapes (2014) (42)
- CYSTM, a novel cysteine-rich transmembrane module with a role in stress tolerance across eukaryotes (2009) (41)
- NONU-1 encodes a conserved endonuclease required for mRNA translation surveillance (2019) (41)
- Pathogenic Roles of CD14, Galectin-3, and OX40 during Experimental Cerebral Malaria in Mice (2009) (41)
- Differential action of natural selection on the N and C-terminal domains of 2'-5' oligoadenylate synthetases and the potential nuclease function of the C-terminal domain. (2003) (40)
- A TET Homologue Protein from Coprinopsis cinerea (CcTET) That Biochemically Converts 5-Methylcytosine to 5-Hydroxymethylcytosine, 5-Formylcytosine, and 5-Carboxylcytosine (2014) (40)
- Provenance of SET-Domain Histone Methyltransferases Through Duplication of a Simple Structural Unit (2003) (40)
- Heterogeneous nuclear ribonucleoprotein L-like (hnRNPLL) and elongation factor, RNA polymerase II, 2 (ELL2) are regulators of mRNA processing in plasma cells (2012) (40)
- Specific Expansion of Protein Families in the Radioresistant Bacterium Deinococcus Radiodurans (2004) (39)
- MicroRNA targeting in mammalian genomes: genes and mechanisms (2010) (39)
- Aldolases of the DhnA family: a possible solution to the problem of pentose and hexose biosynthesis in archaea. (2000) (39)
- Antimicrobial Peptides, Polymorphic Toxins, and Self-Nonself Recognition Systems in Archaea: an Untapped Armory for Intermicrobial Conflicts (2019) (39)
- DNA Methylation on N 6-Adenine in C . elegans Graphical Abstract Highlights (2015) (39)
- DOMON: an ancient extracellular domain in dopamine beta-monooxygenase and other proteins. (2001) (38)
- Transposons to toxins: the provenance, architecture and diversification of a widespread class of eukaryotic effectors (2016) (38)
- The RAGNYA fold: a novel fold with multiple topological variants found in functionally diverse nucleic acid, nucleotide and peptide-binding proteins (2007) (37)
- Structure and evolution of ubiquitin and ubiquitin-related domains. (2012) (37)
- ALOG domains: provenance of plant homeotic and developmental regulators from the DNA-binding domain of a novel class of DIRS1-type retroposons (2012) (37)
- Host Biomarkers and Biological Pathways That Are Associated with the Expression of Experimental Cerebral Malaria in Mice (2008) (37)
- A new family of polymerases related to superfamily A DNA polymerases and T7-like DNA-dependent RNA polymerases (2008) (37)
- Reconstructing the ubiquitin network - cross-talk with other systems and identification of novel functions (2009) (36)
- TET methylcytosine oxidases: new insights from a decade of research (2020) (36)
- A novel superfamily containing the β-grasp fold involved in binding diverse soluble ligands (2007) (35)
- ATP hydrolysis by a domain related to translation factor GTPases drives polymerization of a static bacterial morphogenetic protein (2012) (34)
- Structural basis of HMCES interactions with abasic DNA and multivalent substrate recognition (2019) (34)
- The Origin and Evolution of Release Factors: Implications for Translation Termination, Ribosome Rescue, and Quality Control Pathways (2019) (34)
- The Histone Database: a comprehensive WWW resource for histones and histone fold-containing proteins (2000) (31)
- Jumbo Phages: A Comparative Genomic Overview of Core Functions and Adaptions for Biological Conflicts (2021) (31)
- Polyvalent Proteins, a Pervasive Theme in the Intergenomic Biological Conflicts of Bacteriophages and Conjugative Elements (2017) (30)
- Selection of the lamprey VLRC antigen receptor repertoire (2014) (29)
- Erasure of Tet-Oxidized 5-Methylcytosine by a SRAP Nuclease. (2017) (29)
- Vms1 and ANKZF1 peptidyl-tRNA hydrolases release nascent chains from stalled ribosomes (2018) (28)
- HMCES Functions in the Alternative End-Joining Pathway of the DNA DSB Repair during Class Switch Recombination in B Cells. (2019) (28)
- Structure–function analysis of manganese exporter proteins across bacteria (2018) (28)
- The emergence of catalytic and structural diversity within the beta‐clip fold (2004) (28)
- Simultaneous sequencing of oxidized methylcytosines produced by TET/JBP dioxygenases in Coprinopsis cinerea (2014) (27)
- Apoptosis: Searching for FLASH domains (1999) (26)
- The SHS2 module is a common structural theme in functionally diverse protein groups, like Rpb7p, FtsA, GyrI, and MTH1598/TM1083 superfamilies (2004) (26)
- Bacterial homologs of the small subunit of eukaryotic DNA primase. (2000) (26)
- Domain Architectures of the Scm3p Protein Provide Insights into Centromere Function and Evolution (2007) (26)
- Expression, Purification, and Biological Characterization of Babesia microti Apical Membrane Antigen 1 (2015) (26)
- Identification of Uncharacterized Components of Prokaryotic Immune Systems and Their Diverse Eukaryotic Reformulations (2020) (25)
- Protein and DNA modifications: evolutionary imprints of bacterial biochemical diversification and geochemistry on the provenance of eukaryotic epigenetics. (2014) (25)
- A highly conserved family of domains related to the DNA-glycosylase fold helps predict multiple novel pathways for RNA modifications (2014) (25)
- Whole exome sequencing identifies the TNNI3K gene as a cause of familial conduction system disease and congenital junctional ectopic tachycardia. (2015) (24)
- Multiple enzymatic activities of ParB/Srx superfamily mediate sexual conflict among conjugative plasmids (2014) (24)
- Identification of the m6Am methyltransferase PCIF1 reveals the location and functions of m6Am in the transcriptome (2018) (24)
- MEDS and PocR are novel domains with a predicted role in sensing simple hydrocarbon derivatives in prokaryotic signal transduction systems (2005) (24)
- Gene Duplication with Displacement and Rearrangement: Origin of the Bacterial Replication Protein PriB from the Single-Stranded DNA-Binding Protein Ssb (2003) (23)
- An RNA Repair Operon Regulated by Damaged tRNAs (2020) (22)
- Reconstructing prokaryotic transcriptional regulatory networks: lessons from actinobacteria (2009) (22)
- National Center for Biotechnology Information National Library of Medicine National Institutes of Health an excess of genes of apparent archaeal origin (2000) (22)
- Radiation-induced cellular and molecular alterations in asexual intraerythrocytic Plasmodium falciparum. (2013) (22)
- Comparison of transcription regulatory interactions inferred from high-throughput methods: what do they reveal? (2008) (21)
- Diversification of catalytic activities and ligand interactions in the protein fold shared by the sugar isomerases, eIF2B, DeoR transcription factors, acyl-CoA transferases and methenyltetrahydrofolate synthetase. (2006) (21)
- UMA and MABP domains throw light on receptor endocytosis and selection of endosomal cargoes (2010) (21)
- Evolution and multiple roles of the Pancrustacea specific transcription factor zelda in insects (2017) (21)
- Cloning the human and mouse MMS19 genes and functional complementation of a yeast mms19 deletion mutant. (2001) (21)
- Molecular Correlates of Experimental Cerebral Malaria Detectable in Whole Blood (2010) (21)
- Ribosome collisions induce mRNA cleavage and ribosome rescue in bacteria (2022) (21)
- Erratum: THEMIS enhances TCR signaling and enables positive selection by selective inhibition of the phosphatase SHP-1 (2017) (20)
- The catalytic core of DEMETER guides active DNA demethylation in Arabidopsis (2019) (20)
- Eukaryotic transcription regulators derive from ancient enzymatic domains (1998) (20)
- General trends in the evolution of prokaryotic transcriptional regulatory networks. (2007) (20)
- Analysis of two domains with novel RNA-processing activities throws light on the complex evolution of ribosomal RNA biogenesis (2014) (20)
- Expansions, diversification, and interindividual copy number variations of AID/APOBEC family cytidine deaminase genes in lampreys (2018) (20)
- Plasmodium falciparum: characterization of a late asexual stage golgi protein containing both ankyrin and DHHC domains. (2005) (20)
- Loss of the Spinocerebellar Ataxia type 3 disease protein ATXN3 alters transcription of multiple signal transduction pathways (2018) (20)
- Comprehensive classification of ABC ATPases and their functional radiation in nucleoprotein dynamics and biological conflict systems. (2020) (19)
- Oxidative opening of the aromatic ring: Tracing the natural history of a large superfamily of dioxygenase domains and their relatives (2019) (19)
- TCRβ-expressing macrophages induced by a pathogenic murine malaria correlate with parasite burden and enhanced phagocytic activity (2018) (18)
- The bridge-region of the Ku superfamily is an atypical zinc ribbon domain. (2010) (18)
- AMIN domains have a predicted role in localization of diverse periplasmic protein complexes (2008) (18)
- Genomics: Re-evaluation of translation machinery evolution (1998) (18)
- A Nonhemolytic Group B Streptococcus Strain Exhibits Hypervirulence (2018) (17)
- Evolutionary convergence and divergence in archaeal chromosomal proteins and Chromo-like domains from bacteria and eukaryotes (2018) (17)
- The structure of SSO2064, the first representative of Pfam family PF01796, reveals a novel two-domain zinc-ribbon OB-fold architecture with a potential acyl-CoA-binding role (2010) (17)
- A Membrane-Tethered Ubiquitination Pathway Regulates Hedgehog Signaling and Heart Development. (2020) (17)
- Computational analysis of human disease-associated genes and their protein products. (2001) (17)
- Highly regulated, diversifying NTP-dependent biological conflict systems with implications for the emergence of multicellularity (2020) (17)
- Genomic donor cassette sharing during VLRA and VLRC assembly in jawless vertebrates (2014) (16)
- Type II CAAX prenyl endopeptidases belong to a novel superfamily of putative membrane-bound metalloproteases (2001) (15)
- MORC 2 signaling integrates phosphorylation-dependent , ATPase-coupled chromatin remodeling during the DNA damage response (2017) (14)
- Unification and extensive diversification of M/Orf3-related ion channel proteins in coronaviruses and other nidoviruses (2021) (14)
- High-confidence mapping of chemical compounds and protein complexes reveals novel aspects of chemical stress response in yeast. (2009) (14)
- Apprehending multicellularity: regulatory networks, genomics, and evolution. (2009) (14)
- Human DNA polymerase kappa: a novel DNA polymerase of unknown biological function encoded by the DINB1 gene. (2000) (14)
- Babesia microti: Pathogen Genomics, Genetic Variability, Immunodominant Antigens, and Pathogenesis (2021) (14)
- Novel clades of the HU/IHF superfamily point to unexpected roles in the eukaryotic centrosome, chromosome partitioning, and biologic conflicts (2017) (13)
- Novel Immunoglobulin Domain Proteins Provide Insights into Evolution and Pathogenesis Mechanisms of SARS-Related Coronaviruses (2020) (13)
- Corrigendum: Themis is a member of a new metazoan gene family and is required for the completion of thymocyte positive selection (2010) (13)
- Molecular Markers of Radiation Induced Attenuation in Intrahepatic Plasmodium falciparum Parasites (2016) (12)
- Robustness and evolvability in natural chemical resistance: identification of novel systems properties, biochemical mechanisms and regulatory interactions. (2010) (12)
- Inferring joint sequence-structural determinants of protein functional specificity (2018) (12)
- Deciphering the Role of a SLOG Superfamily Protein YpsA in Gram-Positive Bacteria (2019) (12)
- Evolutionarily ancient BAH–PHD protein mediates Polycomb silencing (2020) (11)
- An autoinhibitory conformation of the Bacillus subtilis spore coat protein SpoIVA prevents its premature ATP-independent aggregation. (2014) (11)
- Horizontal Gene Transfer and its Role in the Evolution of Prokaryotes (2002) (11)
- Transcription factors, chromatin proteins and the diversification of Hemiptera. (2016) (11)
- The cyl Genes Reveal the Biosynthetic and Evolutionary Origins of the Group B Streptococcus Hemolytic Lipid, Granadaene (2020) (11)
- GREB1: An evolutionarily conserved protein with a glycosyltransferase domain links ERα glycosylation and stability to cancer (2021) (11)
- HPC2 and ubinuclein define a novel family of histone chaperones conserved throughout eukaryotesw (2009) (10)
- Erratum: Genome of Rhodnius prolixus, an insect vector of Chagas disease, reveals unique adaptations to hematophagy and parasite infection (Proceedings of the National Academy of Sciences of the United States of America (2015) 112 (14936-14941) DOI 10.1073/pnas.1506226112) (2016) (10)
- The Knickkopf DOMON domain is essential for cuticle differentiation in Drosophila melanogaster. (2014) (10)
- Antigen Discovery, Bioinformatics and Biological Characterization of Novel Immunodominant Babesia microti Antigens (2020) (9)
- Bacterial NLR-related proteins protect against phage (2022) (9)
- Evolutionarily ancient BAH-PHD protein mediates Polycomb silencing (2019) (9)
- Estimating the Prevalence and Regulatory Potential of the Telomere Looping Effect in Yeast Transcription Regulation (2006) (9)
- Vibrio parahaemolyticus RhsP represents a widespread group of pro-effectors for type VI secretion systems (2018) (9)
- Female Anopheles gambiae antennae: increased transcript accumulation of the mosquito-specific odorant-binding-protein OBP2 (2012) (8)
- Functional innovation in the evolution of the calcium-dependent system of the eukaryotic endoplasmic reticulum (2019) (8)
- The X‐ray crystallographic structure and activity analysis of a Pseudomonas‐specific subfamily of the HAD enzyme superfamily evidences a novel biochemical function (2007) (8)
- [Vertebrate immunity: mutator proteins and their evolution]. (2007) (8)
- Bacterial death and TRADD-N domains help define novel apoptosis and immunity mechanisms shared by prokaryotes and metazoans (2021) (8)
- The GAF domain (1997) (8)
- The eukaryotic translation initiation regulator CDC123 defines a divergent clade of ATP-grasp enzymes with a predicted role in novel protein modifications (2015) (7)
- Evolutionary and Biochemical Aspects of Chemical Stress Resistance in Saccharomyces cerevisiae (2012) (7)
- The Anabaena sensory rhodopsin transducer defines a novel superfamily of prokaryotic small-molecule binding domains (2009) (7)
- Impaired Hydroxylation of 5-Methylcytosine In TET2 mutated Patients with Myeloid Malignancies (2010) (6)
- LUD, a new protein domain associated with lactate utilization (2013) (6)
- HMCES Functions in the Alternative End-Joining Pathway of the DNA DSB Repair during Class Switch Recombination in B Cells. (2020) (6)
- Structure and sequence analyses of Bacteroides proteins BVU_4064 and BF1687 reveal presence of two novel predominantly-beta domains, predicted to be involved in lipid and cell surface interactions (2015) (6)
- Robot Scientist: an Autonomous Platform for Systems Biology Discovery (2006) (6)
- Multifunctional Involvement of a C2H2 Zinc Finger Protein (PbZfp) in Malaria Transmission, Histone Modification, and Susceptibility to DNA Damage Response (2017) (5)
- Discovering Biological Conflict Systems Through Genome Analysis: Evolutionary Principles and Biochemical Novelty. (2022) (5)
- SimPhenyTM: A Computational Infrastructure for Systems Biology (2005) (5)
- Unexpected Evolution of Lesion-Recognition Modules in Eukaryotic NER and Kinetoplast DNA Dynamics Proteins from Bacterial Mobile Elements (2018) (5)
- Variations on a theme: evolution of the phage-shock-protein system in Actinobacteria (2018) (5)
- SURVEY AND SUMMARY Did DNA replication evolve twice independently ? (1999) (5)
- Comparative genomics, evolution and origins of the nuclear envelope and nuclear pore complex. (2004) (5)
- Differences in evolutionary pressure acting within highly conserved ortholog groups (2008) (4)
- Gene-teratogen interactions influence the penetrance of birth defects by altering Hedgehog signaling strength (2021) (4)
- CHAPTER 11:The TET/JBP Family of Nucleic Acid Base-Modifying 2-Oxoglutarate and Iron-Dependent Dioxygenases (2015) (4)
- Reformulation of an extant ATPase active site to mimic ancestral GTPase activity reveals a nucleotide base requirement for function. (2021) (4)
- Appendix 1B The Evolutionary History of Proteins Involved in Pre-replication Complex Assembly (2006) (4)
- Evolution of Eukaryotic Chromatin Proteins and Transcription Factors (2013) (4)
- Mycobacterium tuberculosis Rv0991c Is a Redox-Regulated Molecular Chaperone (2020) (3)
- Unusual Activity of a Chlamydomonas TET/JBP Family Enzyme. (2019) (3)
- Exploring histones and their relatives with the Histone Sequence Database. (2000) (3)
- Intraproteomic networks: new forays into predicting interaction partners. (2002) (3)
- The two faces of short-range evolutionary dynamics of regulatory modes in bacterial transcriptional regulatory networks. (2007) (3)
- Two Pfam protein families characterized by a crystal structure of protein lpg2210 from Legionella pneumophila (2013) (3)
- The Origin and Evolution of Release Factors: Implications for Translation Termination, Ribosome Rescue and Quality Control Pathways (2019) (3)
- Corrigendum: The cyl Genes Reveal the Biosynthetic and Evolutionary Origins of the Group B Streptococcus Hemolytic Lipid, Granadaene (2020) (2)
- Wireless Power Transmission using Class E Power Amplifier from Solar Input (2015) (2)
- Apprehending the NAD+–ADPr-Dependent Systems in the Virus World (2022) (2)
- Two novel PIWI families: roles in inter-genomic conflicts in bacteria and Mediator-dependent modulation of transcription in eukaryotes (2013) (2)
- Structure of the first representative of Pfam family PF04016 (DUF364) reveals enolase and Rossmann-like folds that combine to form a unique active site with a possible role in heavy-metal chelation (2010) (2)
- Functional Innovation in the Evolution of the Calcium-Dependent System of the Eukaryotic Endoplasmic Reticulum (2020) (2)
- MORC2 Signaling Facilitates Phosphorylation-dependent, ATPase-coupled Chromatin Remodeling during the DNA Damage Response (2013) (2)
- Design and analysis of a rear diffuser in a sedan car (2021) (2)
- GATD3A, a mitochondrial deglycase with evolutionary origins from gammaproteobacteria, restricts the formation of advanced glycation end products (2022) (2)
- Incarnation of classical pro- and eukaryotic mechanisms of mutagenesis in hypermutagenesis and immunity of vertebrates (2007) (2)
- The Phage-shock-protein (PSP) Envelope Stress Response: Discovery of Novel Partners and Evolutionary History (2021) (2)
- Retraction Note: Vibrio parahaemolyticus RhsP represents a widespread group of pro-effectors for type VI secretion systems (2018) (2)
- Bacterial developmental checkpoint that directly monitors cell surface morphogenesis. (2022) (2)
- An interview with Drs. Eugene V. Koonin and L. Aravind on their highly cited paper published in Cell Cycle (2009) (2)
- Ribosome collisions in bacteria promote ribosome rescue by triggering mRNA cleavage by SmrB (2021) (1)
- LUD, a new protein domain associated with lactate utilization (2013) (1)
- Discovery of the role of a SLOG superfamily biological conflict systems associated protein IodA (YpsA) in oxidative stress protection and cell division inhibition in Gram-positive bacteria (2018) (1)
- ALOG domains: provenance of plant homeotic and developmental regulators from the DNA-binding domain of a novel class of DIRS1-type retroposons (2012) (1)
- Female Anopheles gambiae antennae: increased transcript accumulation of the mosquito-specific odorant-binding-protein OBP2 (2012) (1)
- Novel autoproteolytic and DNA-damage sensing components in the bacterial SOS response and oxidized methylcytosine-induced eukaryotic DNA demethylation systems (2013) (1)
- Polymorphic toxin systems: Comprehensive characterization of trafficking modes, processing, mechanisms of action, immunity and ecology using comparative genomics (2012) (1)
- Live virus-free or die: coupling of antivirus immunity and programmed suicide or dormancy in prokaryotes (2012) (1)
- GATD3A, a mitochondrial deglycase with evolutionary origins from gammaproteobacteria, restricts the formation of advanced glycation end products (2022) (1)
- Structure and computational analysis of a novel protein with metallopeptidase-like and circularly permuted winged-helix-turn-helix domains reveals a possible role in modified polysaccharide biosynthesis (2014) (1)
- ArticleThe C . elegans Polycomb Gene sop-2 Encodes an RNA Binding Protein yeast (2004) (1)
- Two Pfam protein families characterized by a crystal structure of protein lpg2210 from Legionella pneumophila (2013) (1)
- Filling out the structural map of the NTF2-like superfamily (2013) (1)
- A superfamily of proteins that contain the cold-shock domain (1998) (1)
- No Sec7-homology domain in guanine-nucleotide-exchange factors that act on Ras and Rho. (1999) (1)
- A ubiquitin-based mechanism for the oligogenic inheritance of heterotaxy and heart defects (2020) (1)
- Table 9, Examples of eukaryotic-prokaryotic transfer of functionally diverse genes (2002) (0)
- Structure and computational analysis of a novel protein with metallopeptidase-like and circularly permuted winged-helix-turn-helix domains reveals a possible role in modified polysaccharide biosynthesis (2014) (0)
- Author response: Highly regulated, diversifying NTP-dependent biological conflict systems with implications for the emergence of multicellularity (2020) (0)
- Table 7, Examples of eukaryotic-bacterial transfer of genes coding for proteins and domains involved in signal transduction a (2002) (0)
- Biology in silico – a mixed bag (1999) (0)
- Unification of the M/ORF3-related proteins points to a diversified role for ion conductance in pathogenesis of coronaviruses and other nidoviruses (2020) (0)
- Table 4, Candidate horizontal gene transfers between major bacterial lineages: a quantitative assessment a (2002) (0)
- Genome of the Extremely Radiation-Resistant Bacterium <italic toggle='yes'>Deinococcus radiodurans</italic> Viewed from the Perspective of Comparative Genomics (2001) (0)
- The unexpected provenance of components in eukaryotic nucleotide-excision-repair and kinetoplast DNA-dynamics from bacterial mobile elements (2018) (0)
- Innate immunity and bacterial conflict: the deep origins of cGAS-STING signaling and discovery of uncharacterized animal immunity pathways (2020) (0)
- Table 8, Horizontal transfer of eukaryotic aaRS genes into different bacterial lineages a (2002) (0)
- Evolutionary convergence and divergence in archaeal chromosomal proteins and Chromo-like domains from bacteria and eukaryotes (2018) (0)
- TET methylcytosine oxidases: new insights from a decade of research (2020) (0)
- Gene expression studies in Arabidopsis thaliana - a network perspective. (2006) (0)
- The eukaryotic translation initiation regulator CDC123 defines a divergent clade of ATP-grasp enzymes with a predicted role in novel protein modifications (2015) (0)
- A tangled tale of convergence and divergence: archaeal chromosomal proteins and Chromo-like domains in bacteria and eukaryotes (2017) (0)
- The DOMON domain of Knickkopf is essential for its function during cuticle 1 differentiation in Drosophila 2 (2013) (0)
- , and in Two Different Oceanic Provinces Genotypic Variants in a Single Population Comparative Genomic Analysis of Archaeal (2001) (0)
- Structural basis of HMCES interactions with DNA reveals multivalent substrate recognition (2019) (0)
- Structure and sequence analyses of Bacteroides proteins BVU_4064 and BF1687 reveal presence of two novel predominantly-beta domains, predicted to be involved in lipid and cell surface interactions (2015) (0)
- Opening Pandora's Box: making biological discoveries through computational data exploration (2007) (0)
- Resource Identification of the m 6 Am Methyltransferase PCIF 1 Reveals the Location and Functions of m 6 Am in the Transcriptome Graphical Abstract Highlights (2019) (0)
- Erratum: Themis is a member of a new metazoan gene family and is required for the completion of thymocyte positive selection (Nature Immunology (2009) 10 (831-839)) (2010) (0)
- Describing the interactive model design of avian influenza : Animal infection and human infection (2016) (0)
- Editorial overview: Sequences and topology: Protein function - synthesizing information from sequence, structure and disorder. (2016) (0)
- Genome Maps: 11 The Human Genome (2001) (0)
- Phage-shock-protein (Psp) Envelope Stress Response: Evolutionary History and Discovery of Novel Players (2020) (0)
- The complete genomes of the yeast Saccharomyces cerevisiae and the nematode worm Caenorhabditis elegans (0)
- Prokaryotic Transcriptional Regulatory Networks 615 target genes and regulatory interactions in the network ? (2006) (0)
- PNAS Plus Significance Statements (2014) (0)
- Table 2, Examples of horizontally transferred operons (2002) (0)
- Genome sequencing and assessment of plant growth-promoting properties of a Serratia marcescens strain isolated from vermicompost (2018) (0)
- Global transcriptional effects of PEG-IFN-alpha and ribavirin on peripheral blood cells obtained from patients with chronic hepatitis C. (2006) (0)
- Mechanism and evolutionary origins of Alanine-tail C-degron recognition by E3 ligases Pirh2 and CRL2-KLHDC10 (2023) (0)
- Molecular Correlates of Experimental Cerebral (2010) (0)
- Table 5, Classification of candidate horizontal gene transfer events in selected genomes a (2002) (0)
- Author response: Inferring joint sequence-structural determinants of protein functional specificity (2017) (0)
- Comprehensive analysis of the HEPN superfamily: identification of novel roles in intra-genomic conflicts, defense, pathogenesis and RNA processing (2013) (0)
- New biochemistry in the Rhodanese-phosphatase superfamily: emerging roles in diverse metabolic processes, nucleic acid modifications, and biological conflicts. (2023) (0)
- In silico approaches to functional analysis of proteins (2005) (0)
- Author response: Reformulation of an extant ATPase active site to mimic ancestral GTPase activity reveals a nucleotide base requirement for function (2021) (0)
- Author response: Bacterial death and TRADD-N domains help define novel apoptosis and immunity mechanisms shared by prokaryotes and metazoans (2021) (0)
- Retraction Note: Vibrio parahaemolyticus RhsP represents a widespread group of pro-effectors for type VI secretion systems (2019) (0)
- Short Article The C. elegans Polycomb Gene sop-2 Encodes an RNA Binding Protein (2004) (0)
- "RETRACTED ARTICLE: Vibrio parahaemolyticus RhsP represents a widespread group of pro-effectors for type VI secretion systems (2018) (0)
- Table 3, Candidate horizontal transfers between bacteria, archaea, and eukaryotes: a quantitative assessment a (2002) (0)
- Crystal Structure of PSPTO_2114 (2007) (0)
- Ribosome collisions induce mRNA cleavage and ribosome rescue in bacteria (2022) (0)
- Fuel cell systems for ships and pleasure boats (2017) (0)
- Human and mouse homologs of Escherichia coli DinB ( DNA polymerase IV ) , members of the UmuC y DinB superfamily (0)
- Associated with the Expression of Experimental (2008) (0)
- Quod erat demonstrandum? No restriction endonuclease fold in MIF (2016) (0)
- 1 Title : The roles of Conserved Domains in DEMETER-Mediated Active DNA Demethylation in 1 planta 2 3 (2017) (0)
- Figure 1, [Distribution of the clusters of...]. (2002) (0)
- THEMISはTCRシグナリングを増強し,ホスファターゼSHP‐1の選択的阻害により正の選択を可能にする (2017) (0)
- Deoxyhypusine hydroxylase: a novel HEAT‐repeat‐containing metalloenzyme (2006) (0)
- The roles of Conserved Domains in DEMETER-Mediated Active DNA Demethylation in planta (2017) (0)
- Table 6, Apparent phylogenetic affinities of eukaryotic best hits in bacteria and archaea (2002) (0)
- Reviewers acknowledgement (2014) (0)
- Contents Vol. 5, 2003 (2003) (0)
- Molecular Correlates of Experimental Cerebral 1 Malaria Detectable in Whole Blood 2 3 (2010) (0)
- Figure 2, [Phylogenetic trees illustrating xenologous gene...]. (2002) (0)
- Table 1, Examples of probable horizontal gene transfers identified using phyletic patterns in COGs a (2002) (0)
- A STUDY ON TEXT DETECTION AND CLASSIFICATION IN NATURAL IMAGES (2021) (0)
- Subject Index Vol. 5, 2003 (2003) (0)
- Editorial overview: Sequences and topology: sequences, structures, genomes and populations. (2014) (0)
- Variations on a theme: evolution of the phage-shock-protein system in Actinobacteria (2018) (0)
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