| scholarly article | Q13442814 |
| P6179 | Dimensions Publication ID | 1027241290 |
| P356 | DOI | 10.1186/GB-2006-7-7-R60 |
| P932 | PMC publication ID | 1779556 |
| P698 | PubMed publication ID | 16859499 |
| P5875 | ResearchGate publication ID | 6925586 |
| P50 | author | Aravind L Iyer | Q4784512 |
| Maxwell Burroughs | Q57749112 | ||
| Lakshminarayan M. Iyer | Q57749186 | ||
| A Maxwell Burroughs | Q89891231 | ||
| P2860 | cites work | A guild of 45 CRISPR-associated (Cas) protein families and multiple CRISPR/Cas subtypes exist in prokaryotic genomes | Q21090166 |
| New connections in the prokaryotic toxin-antitoxin network: relationship with the eukaryotic nonsense-mediated RNA decay system | Q21194875 | ||
| 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 | Q21203780 | ||
| MUSCLE: a multiple sequence alignment method with reduced time and space complexity | Q21284290 | ||
| Genome Sequence of an Obligate Intracellular Pathogen of Humans: Chlamydia trachomatis | Q22065557 | ||
| De-ubiquitination and ubiquitin ligase domains of A20 downregulate NF-kappaB signalling | Q24299573 | ||
| PUMA2--grid-based high-throughput analysis of genomes and metabolic pathways | Q24538614 | ||
| Gapped BLAST and PSI-BLAST: a new generation of protein database search programs | Q24545170 | ||
| Biosynthesis of the thiazole moiety of thiamin in Escherichia coli: identification of an acyldisulfide-linked protein--protein conjugate that is functionally analogous to the ubiquitin/E1 complex | Q24630699 | ||
| Structure of the Escherichia coli ThiS-ThiF complex, a key component of the sulfur transfer system in thiamin biosynthesis | Q24653002 | ||
| The use of gene clusters to infer functional coupling | Q24673189 | ||
| REBASE--restriction enzymes and DNA methyltransferases | Q24793693 | ||
| Evolutionary history, structural features and biochemical diversity of the NlpC/P60 superfamily of enzymes | Q24804620 | ||
| SMART 5: domains in the context of genomes and networks | Q25255440 | ||
| The structure of threonyl-tRNA synthetase-tRNA(Thr) complex enlightens its repressor activity and reveals an essential zinc ion in the active site | Q27618154 | ||
| Crystal structure of molybdopterin synthase and its evolutionary relationship to ubiquitin activation | Q27629101 | ||
| Mechanism of ubiquitin activation revealed by the structure of a bacterial MoeB-MoaD complex | Q27636255 | ||
| Profile hidden Markov models | Q27860536 | ||
| SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling | Q27860614 | ||
| Dali: a network tool for protein structure comparison | Q27860617 | ||
| Mechanisms underlying ubiquitination | Q27860656 | ||
| The ubiquitin system | Q27860803 | ||
| T-Coffee: A novel method for fast and accurate multiple sequence alignment | Q27860999 | ||
| Role of predicted metalloprotease motif of Jab1/Csn5 in cleavage of Nedd8 from Cul1. | Q27931858 | ||
| A protein conjugation system in yeast with homology to biosynthetic enzyme reaction of prokaryotes | Q27932025 | ||
| Attachment of the ubiquitin-related protein Urm1p to the antioxidant protein Ahp1p | Q27936831 | ||
| Role of Rpn11 metalloprotease in deubiquitination and degradation by the 26S proteasome | Q27937927 | ||
| Biochemistry. All in the ubiquitin family | Q28143379 | ||
| Deubiquitinating enzymes--the importance of driving in reverse along the ubiquitin-proteasome pathway | Q28188326 | ||
| MOSC domains: ancient, predicted sulfur-carrier domains, present in diverse metal-sulfur cluster biosynthesis proteins including Molybdenum cofactor sulfurases | Q28206023 | ||
| Themes and variations on ubiquitylation | Q28206411 | ||
| Comparative genomics of thiamin biosynthesis in procaryotes. New genes and regulatory mechanisms | Q28207076 | ||
| Molybdenum cofactor biosynthesis and molybdenum enzymes | Q28237956 | ||
| A genomic and functional inventory of deubiquitinating enzymes | Q28284911 | ||
| Novel predicted peptidases with a potential role in the ubiquitin signaling pathway | Q28287730 | ||
| Enhanced genome annotation using structural profiles in the program 3D-PSSM | Q29547847 | ||
| JPred: a consensus secondary structure prediction server | Q29614378 | ||
| Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements | Q29614394 | ||
| SCOP database in 2004: refinements integrate structure and sequence family data | Q29615988 | ||
| A workbench for multiple alignment construction and analysis | Q29618211 | ||
| Inferring phylogenies from protein sequences by parsimony, distance, and likelihood methods | Q29618948 | ||
| Gibbs motif sampling: detection of bacterial outer membrane protein repeats | Q30193211 | ||
| Regulatory potential, phyletic distribution and evolution of ancient, intracellular small-molecule-binding domains. | Q30328096 | ||
| DNA polymerase beta-like nucleotidyltransferase superfamily: identification of three new families, classification and evolutionary history | Q30559537 | ||
| A natural classification of ribonucleases | Q30727507 | ||
| Comparative genomics of the Archaea (Euryarchaeota): evolution of conserved protein families, the stable core, and the variable shell. | Q30738900 | ||
| Genome alignment, evolution of prokaryotic genome organization, and prediction of gene function using genomic context | Q30982525 | ||
| Peptide-N-glycanases and DNA repair proteins, Xp-C/Rad4, are, respectively, active and inactivated enzymes sharing a common transglutaminase fold | Q31943830 | ||
| Comparative genomics of the FtsK-HerA superfamily of pumping ATPases: implications for the origins of chromosome segregation, cell division and viral capsid packaging | Q33207648 | ||
| ClpS is an essential component of the N-end rule pathway in Escherichia coli. | Q33233474 | ||
| The NYN domains: novel predicted RNAses with a PIN domain-like fold | Q33264065 | ||
| WIT: integrated system for high-throughput genome sequence analysis and metabolic reconstruction | Q33611515 | ||
| Evolution of aminoacyl-tRNA synthetases--analysis of unique domain architectures and phylogenetic trees reveals a complex history of horizontal gene transfer events. | Q33870978 | ||
| A superfamily of archaeal, bacterial, and eukaryotic proteins homologous to animal transglutaminases | Q33871440 | ||
| A novel superfamily of predicted cysteine proteases from eukaryotes, viruses and Chlamydia pneumoniae | Q33889181 | ||
| Ubiquitin-mediated proteolysis: biological regulation via destruction | Q33910576 | ||
| A ubiquitin-interacting motif conserved in components of the proteasomal and lysosomal protein degradation systems | Q33951379 | ||
| The SsrA-SmpB system for protein tagging, directed degradation and ribosome rescue | Q33958596 | ||
| ESAT-6 proteins: protective antigens and virulence factors? | Q33982392 | ||
| Molybdenum cofactor biosynthesis and deficiency | Q33991147 | ||
| Characterization of Escherichia coli MoeB and its involvement in the activation of molybdopterin synthase for the biosynthesis of the molybdenum cofactor | Q34084537 | ||
| Systematic identification of novel protein domain families associated with nuclear functions | Q34108188 | ||
| Thiamin biosynthesis in Bacillus subtilis: structure of the thiazole synthase/sulfur carrier protein complex | Q34347739 | ||
| The genome of the novel phage Rtp, with a rosette-like tail tip, is homologous to the genome of phage T1 | Q34353966 | ||
| Identification of molybdopterin as the organic component of the tungsten cofactor in four enzymes from hyperthermophilic Archaea. | Q34361260 | ||
| The UBA domain: a sequence motif present in multiple enzyme classes of the ubiquitination pathway | Q34402796 | ||
| Structural analysis of Escherichia coli ThiF. | Q34419223 | ||
| E3 ubiquitin ligases | Q34463014 | ||
| Diversity of siderophore-mediated iron uptake systems in fluorescent pseudomonads: not only pyoverdines | Q35048073 | ||
| A superfamily of protein tags: ubiquitin, SUMO and related modifiers | Q35162583 | ||
| Deubiquitinating enzymes: their functions and substrate specificity. | Q35794053 | ||
| Deubiquitinating enzymes are IN/(trinsic to proteasome function). | Q35799696 | ||
| Homologues of 26S proteasome subunits are regulators of transcription and translation | Q36281001 | ||
| Three-dimensional structure of the AAH26994.1 protein from Mus musculus, a putative eukaryotic Urm1 | Q36518080 | ||
| Solution structure of the RWD domain of the mouse GCN2 protein | Q36519167 | ||
| The FSSP database: fold classification based on structure-structure alignment of proteins | Q38564157 | ||
| Predicting protein function by genomic context: quantitative evaluation and qualitative inferences | Q40414366 | ||
| A novel integrative and conjugative element (ICE) of Escherichia coli: the putative progenitor of the Yersinia high-pathogenicity island | Q41464046 | ||
| Biosynthesis and processing of the molybdenum cofactors | Q41655388 | ||
| The Pseudomonas siderophore quinolobactin is synthesized from xanthurenic acid, an intermediate of the kynurenine pathway | Q42624186 | ||
| The ESAT-6/WXG100 superfamily -- and a new Gram-positive secretion system? | Q42675010 | ||
| Bioinformatic analysis of ClpS, a protein module involved in prokaryotic and eukaryotic protein degradation | Q44307965 | ||
| Crystal structure of the toluene/o-xylene monooxygenase hydroxylase from Pseudomonas stutzeri OX1. Insight into the substrate specificity, substrate channeling, and active site tuning of multicomponent monooxygenases | Q44851116 | ||
| The PCI domain: a common theme in three multiprotein complexes | Q47916829 | ||
| Overexpression in Escherichia coli of the rnf genes from Rhodobacter capsulatus--characterization of two membrane-bound iron-sulfur proteins | Q48039837 | ||
| PCMA: fast and accurate multiple sequence alignment based on profile consistency. | Q52022598 | ||
| Detection of common three-dimensional substructures in proteins | Q52465662 | ||
| Crystal structure of the ubiquitin-like protein YukD from Bacillus subtilis. | Q52564878 | ||
| E3 ubiquitin ligases | Q56385740 | ||
| On the maximum likelihood method in molecular phylogenetics | Q67989380 | ||
| The role of adenylyltransferase and uridylyltransferase in the regulation of glutamine synthetase in Escherichia coli | Q69877114 | ||
| P433 | issue | 7 | |
| P304 | page(s) | R60 | |
| P577 | publication date | 2006-01-01 | |
| P1433 | published in | Genome Biology | Q5533480 |
| P1476 | title | The prokaryotic antecedents of the ubiquitin-signaling system and the early evolution of ubiquitin-like beta-grasp domains | |
| P478 | volume | 7 |
| Q24315993 | A functional proteomics approach links the ubiquitin-related modifier Urm1 to a tRNA modification pathway |
| Q33823011 | A highly conserved family of domains related to the DNA-glycosylase fold helps predict multiple novel pathways for RNA modifications |
| Q36163489 | A metazoan ATAC acetyltransferase subunit that regulates mitogen-activated protein kinase signaling is related to an ancient molybdopterin synthase component |
| Q90040846 | A new gene inventory of the ubiquitin and ubiquitin-like conjugation pathways in Giardia intestinalis |
| Q30999460 | A novel immunity system for bacterial nucleic acid degrading toxins and its recruitment in various eukaryotic and DNA viral systems |
| Q33270232 | A novel superfamily containing the beta-grasp fold involved in binding diverse soluble ligands |
| Q41983394 | A proteomics approach to identify targets of the ubiquitin-like molecule Urm1 in Drosophila melanogaster |
| Q24646968 | A widespread riboswitch candidate that controls bacterial genes involved in molybdenum cofactor and tungsten cofactor metabolism |
| Q33519914 | Amidoligases with ATP-grasp, glutamine synthetase-like and acetyltransferase-like domains: synthesis of novel metabolites and peptide modifications of proteins |
| Q33319924 | Anatomy of the E2 ligase fold: implications for enzymology and evolution of ubiquitin/Ub-like protein conjugation |
| Q34170033 | Archaeal Ubiquitin-Like Proteins: Functional Versatility and Putative Ancestral Involvement in tRNA Modification Revealed by Comparative Genomic Analysis |
| Q37606188 | Archaeal proteasomes and sampylation |
| Q37428832 | Archaeal ubiquitin-like SAMP3 is isopeptide-linked to proteins via a UbaA-dependent mechanism |
| Q26851281 | Biosynthesis and functions of sulfur modifications in tRNA |
| Q41462992 | Clustering of giant virus-DNA based on variations in local entropy |
| Q27683702 | Co-opting sulphur-carrier proteins from primary metabolic pathways for 2-thiosugar biosynthesis |
| Q37028235 | Common thiolation mechanism in the biosynthesis of tRNA thiouridine and sulphur-containing cofactors |
| Q35847777 | Comparative genomic analyses reveal a vast, novel network of nucleotide-centric systems in biological conflicts, immunity and signaling |
| Q33779660 | Comparative genomics uncovers novel structural and functional features of the heterotrimeric GTPase signaling system |
| Q33878209 | Comprehensive classification of the PIN domain-like superfamily |
| Q27678888 | Crystal structure of the ubiquitin-like small archaeal modifier protein 2 fromHaloferax volcanii |
| Q90163216 | Cyclic GMP-AMP signalling protects bacteria against viral infection |
| Q31148267 | Discrimination between distant homologs and structural analogs: lessons from manually constructed, reliable data sets |
| Q64063942 | DncV Synthesizes Cyclic GMP-AMP and Regulates Biofilm Formation and Motility in ECOR31 |
| Q34693707 | E1- and ubiquitin-like proteins provide a direct link between protein conjugation and sulfur transfer in archaea |
| Q35741864 | ElaD, a Deubiquitinating protease expressed by E. coli |
| Q34038470 | Ends of the line for tmRNA-SmpB. |
| Q34010890 | Evolution of the deaminase fold and multiple origins of eukaryotic editing and mutagenic nucleic acid deaminases from bacterial toxin systems |
| Q33270514 | Exploitation of eukaryotic ubiquitin signaling pathways by effectors translocated by bacterial type III and type IV secretion systems |
| Q28236887 | Functional diversification of the RING finger and other binuclear treble clef domains in prokaryotes and the early evolution of the ubiquitin system |
| Q42639732 | Functional reconstruction of a eukaryotic-like E1/E2/(RING) E3 ubiquitylation cascade from an uncultured archaeon |
| Q34392545 | Gene flow and biological conflict systems in the origin and evolution of eukaryotes |
| Q28534513 | High levels of DegU-P activate an Esat-6-like secretion system in Bacillus subtilis |
| Q89891233 | Highly-regulated, diversifying NTP-based biological conflict systems with implications for emergence of multicellularity |
| Q31049613 | Identification of novel components of NAD-utilizing metabolic pathways and prediction of their biochemical functions |
| Q28485952 | Impact of whole-genome and tandem duplications in the expansion and functional diversification of the F-box family in legumes (Fabaceae) |
| Q35744854 | In-Vivo Gene Signatures of Mycobacterium tuberculosis in C3HeB/FeJ Mice |
| Q33775208 | Insights into the evolution of Archaea and eukaryotic protein modifier systems revealed by the genome of a novel archaeal group. |
| Q42583535 | Involvement of a eukaryotic-like ubiquitin-related modifier in the proteasome pathway of the archaeon Sulfolobus acidocaldarius. |
| Q37180562 | Ionic strength-dependent conformations of a ubiquitin-like small archaeal modifier protein (SAMP1) from Haloferax volcanii. |
| Q36981728 | Ionic strength-dependent conformations of a ubiquitin-like small archaeal modifier protein (SAMP2) from Haloferax volcanii. |
| Q40416039 | Leishmania donovani-specific Ub-related modifier-1: an early endosome-associated ubiquitin-like conjugation in Leishmania donovani |
| Q36975731 | Mechanisms, biology and inhibitors of deubiquitinating enzymes |
| Q30855071 | Natural history of the E1-like superfamily: implication for adenylation, sulfur transfer, and ubiquitin conjugation |
| Q33791621 | New perspectives on the diversification of the RNA interference system: insights from comparative genomics and small RNA sequencing |
| Q43014971 | Nmag_2608, an extracellular ubiquitin-like domain-containing protein from the haloalkaliphilic archaeon Natrialba magadii |
| Q33566567 | Origin and evolution of peptide-modifying dioxygenases and identification of the wybutosine hydroxylase/hydroperoxidase |
| Q24651141 | Origin and function of ubiquitin-like proteins |
| Q21203755 | Origin of the cell nucleus, mitosis and sex: roles of intracellular coevolution |
| Q34283923 | Polymorphic toxin systems: Comprehensive characterization of trafficking modes, processing, mechanisms of action, immunity and ecology using comparative genomics |
| Q36006888 | Posttranslational modification of cellular proteins by a ubiquitin-like protein in bacteria. |
| Q26998484 | Prokaryotic ubiquitin-like protein modification |
| Q35792807 | Proteasomes and protein conjugation across domains of life |
| Q37682949 | Pupylation versus ubiquitylation: tagging for proteasome-dependent degradation |
| Q33424086 | Reconstructing the ubiquitin network: cross-talk with other systems and identification of novel functions |
| Q39739226 | Rethinking proteasome evolution: two novel bacterial proteasomes |
| Q34701683 | Retracted: Prokaryotic Ubiquitin-Like ThiS Fusion Enhances the Heterologous Protein Overexpression and Aggregation in Escherichia coli |
| Q27932686 | Role of the ubiquitin-like protein Urm1 as a noncanonical lysine-directed protein modifier |
| Q90218813 | Rv0579 Is Involved in the Resistance to the TP053 Antitubercular Prodrug |
| Q37765014 | SAMPyling proteins in archaea |
| Q54358696 | Secondary structure determination by FTIR of an archaeal ubiquitin-like polypeptide from Natrialba magadii. |
| Q27646472 | Sequence and structure evolved separately in a ribosomal ubiquitin variant |
| Q37846108 | Serine/threonine kinases and E2-ubiquitin conjugating enzymes in Planctomycetes: unexpected findings. |
| Q33289671 | Small but versatile: the extraordinary functional and structural diversity of the beta-grasp fold |
| Q36125077 | The Anti-sigma Factor RsiV Is a Bacterial Receptor for Lysozyme: Co-crystal Structure Determination and Demonstration That Binding of Lysozyme to RsiV Is Required for σV Activation |
| Q46470983 | The N-end rule at atomic resolution |
| Q34189152 | The N-end rule pathway and regulation by proteolysis |
| Q64249400 | The Origin and Evolution of Release Factors: Implications for Translation Termination, Ribosome Rescue, and Quality Control Pathways |
| Q92503789 | The Ubiquitin Moiety of Ubi1 Is Required for Productive Expression of Ribosomal Protein eL40 in Saccharomyces cerevisiae |
| Q28602413 | The dual role of ubiquitin-like protein Urm1 as a protein modifier and sulfur carrier |
| Q35081193 | The eukaryotic ancestor had a complex ubiquitin signaling system of archaeal origin |
| Q35605573 | The eukaryotic translation initiation regulator CDC123 defines a divergent clade of ATP-grasp enzymes with a predicted role in novel protein modifications |
| Q37971572 | The natural history of ubiquitin and ubiquitin-related domains |
| Q44777782 | The origins and evolution of ubiquitination sites |
| Q34029652 | The phylogenomic analysis of the anaphase promoting complex and its targets points to complex and modern-like control of the cell cycle in the last common ancestor of eukaryotes |
| Q34336982 | The ubiquitination machinery of the ubiquitin system |
| Q36069994 | Two Inducible Prophages of an Antarctic Pseudomonas sp. ANT_H14 Use the Same Capsid for Packaging Their Genomes - Characterization of a Novel Phage Helper-Satellite System |
| Q39562676 | Type II Toxin-Antitoxin Systems in the Unicellular Cyanobacterium Synechocystis sp. PCC 6803. |
| Q42535352 | Ubiquitin, infinitely seductive: symposium on the many faces of ubiquitin. |
| Q36501230 | Ubiquitin-like proteins and their roles in archaea |
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| Q39785137 | Ubiquitination of specific mitochondrial matrix proteins |
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| Q28756158 | Urm1 at the crossroad of modifications. 'Protein Modifications: Beyond the Usual Suspects' Review Series |
| Q34159673 | Urm1 couples sulfur transfer to ubiquitin-like protein function in oxidative stress |
| Q37215638 | What was the set of ubiquitin and ubiquitin-like conjugating enzymes in the eukaryote common ancestor? |
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