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Search results 1 to 100 out of 109 for Yrdc

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0.058s
Type Details Score
Gene
Type: gene
Organism: human
Gene
Type: gene
Organism: cattle
Gene
Type: gene
Organism: dog, domestic
Gene
Type: gene
Organism: chicken
Gene
Type: gene
Organism: zebrafish
Gene
Type: gene
Organism: macaque, rhesus
Gene
Type: gene
Organism: frog, western clawed
Gene
Type: gene
Organism: rat
Gene
Type: gene
Organism: chimpanzee
Protein Coding Gene
Type: protein_coding_gene
Organism: mouse, laboratory
Protein Coding Gene
Type: protein_coding_gene
Organism: Mus caroli
Protein Coding Gene
Type: protein_coding_gene
Organism: mouse, laboratory
Protein Coding Gene
Type: protein_coding_gene
Organism: mouse, laboratory
Protein Coding Gene
Type: protein_coding_gene
Organism: mouse, laboratory
Protein Coding Gene
Type: protein_coding_gene
Organism: mouse, laboratory
Protein Coding Gene
Type: protein_coding_gene
Organism: mouse, laboratory
Protein Coding Gene
Type: protein_coding_gene
Organism: mouse, laboratory
Protein Coding Gene
Type: protein_coding_gene
Organism: mouse, laboratory
Protein Coding Gene
Type: protein_coding_gene
Organism: mouse, laboratory
Protein Coding Gene
Type: protein_coding_gene
Organism: mouse, laboratory
Protein Coding Gene
Type: protein_coding_gene
Organism: mouse, laboratory
Protein Coding Gene
Type: protein_coding_gene
Organism: mouse, laboratory
Protein Coding Gene
Type: protein_coding_gene
Organism: mouse, laboratory
Protein Coding Gene
Type: protein_coding_gene
Organism: mouse, laboratory
Protein Coding Gene
Type: protein_coding_gene
Organism: mouse, laboratory
Protein Coding Gene
Type: protein_coding_gene
Organism: mouse, laboratory
Protein Coding Gene
Type: protein_coding_gene
Organism: mouse, laboratory
Protein Coding Gene
Type: protein_coding_gene
Organism: Mus pahari
Protein Coding Gene
Type: protein_coding_gene
Organism: Mus spretus
Publication  
First Author: Lai E
Year: 1989
Journal: Adv Immunol
Title: Physical maps of the mouse and human immunoglobulin-like loci.
Volume: 46
Pages: 1-59
Gene
Type: gene
Organism: human
Gene
Type: gene
Organism: human
Gene
Type: gene
Organism: human
Publication
First Author: Jiang W
Year: 2005
Journal: Mol Cell Biol
Title: IRIP, a new ischemia/reperfusion-inducible protein that participates in the regulation of transporter activity.
Volume: 25
Issue: 15
Pages: 6496-508
Publication
First Author: Strausberg RL
Year: 2002
Journal: Proc Natl Acad Sci U S A
Title: Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.
Volume: 99
Issue: 26
Pages: 16899-903
Publication      
First Author: Velocigene
Year: 2008
Journal: MGI Direct Data Submission
Title: Alleles produced for the KOMP project by Velocigene (Regeneron Pharmaceuticals)
Publication        
First Author: Cyagen Biosciences Inc.
Year: 2022
Title: Cyagen Biosciences Website.
Publication      
First Author: Wellcome Trust Sanger Institute
Year: 2010
Journal: MGI Direct Data Submission
Title: Alleles produced for the EUCOMM and EUCOMMTools projects by the Wellcome Trust Sanger Institute
Publication
First Author: Skarnes WC
Year: 2011
Journal: Nature
Title: A conditional knockout resource for the genome-wide study of mouse gene function.
Volume: 474
Issue: 7351
Pages: 337-42
Publication      
First Author: Wellcome Trust Sanger Institute
Year: 2009
Journal: MGI Direct Data Submission
Title: Alleles produced for the KOMP project by the Wellcome Trust Sanger Institute
Publication
First Author: Zambrowicz BP
Year: 2003
Journal: Proc Natl Acad Sci U S A
Title: Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention.
Volume: 100
Issue: 24
Pages: 14109-14
Publication        
First Author: Mouse Genome Informatics Scientific Curators
Year: 2003
Title: MGI Sequence Curation Reference
Publication        
First Author: Mouse Genome Informatics Scientific Curators
Year: 2002
Title: Chromosome assignment of mouse genes using the Mouse Genome Sequencing Consortium (MGSC) assembly and the ENSEMBL Database
Publication        
First Author: Mouse Genome Informatics Scientific Curators
Year: 2001
Title: Gene Ontology Annotation by the MGI Curatorial Staff
Publication      
First Author: Mouse Genome Informatics (MGI) and National Center for Biotechnology Information (NCBI)
Year: 2008
Journal: Database Download
Title: Mouse Gene Trap Data Load from dbGSS
Publication
First Author: Carninci P
Year: 2005
Journal: Science
Title: The transcriptional landscape of the mammalian genome.
Volume: 309
Issue: 5740
Pages: 1559-63
Publication      
First Author: The Jackson Laboratory Mouse Radiation Hybrid Database
Year: 2004
Journal: Database Release
Title: Mouse T31 Radiation Hybrid Data Load
Publication        
First Author: Mouse Genome Informatics Scientific Curators
Year: 2010
Title: Human to Mouse ISO GO annotation transfer
Publication      
First Author: Mouse Genome Informatics Scientific Curators
Year: 2010
Journal: Database Download
Title: Mouse Microarray Data Integration in Mouse Genome Informatics, the Affymetrix GeneChip Mouse Genome U74 Array Platform (A, B, C v2).
Publication      
First Author: MGI Genome Annotation Group and UniGene Staff
Year: 2015
Journal: Database Download
Title: MGI-UniGene Interconnection Effort
Publication
First Author: Diez-Roux G
Year: 2011
Journal: PLoS Biol
Title: A high-resolution anatomical atlas of the transcriptome in the mouse embryo.
Volume: 9
Issue: 1
Pages: e1000582
Publication        
First Author: Mouse Genome Informatics Scientific Curators
Year: 2000
Title: Gene Ontology Annotation by electronic association of SwissProt Keywords with GO terms
Publication        
First Author: Mouse Genome Informatics Scientific Curators
Year: 2002
Title: Mouse Genome Informatics Computational Sequence to Gene Associations
Publication      
First Author: Allen Institute for Brain Science
Year: 2004
Journal: Allen Institute
Title: Allen Brain Atlas: mouse riboprobes
Publication      
First Author: Mouse Genome Informatics
Year: 2010
Journal: Database Release
Title: Protein Ontology Association Load.
Publication
First Author: Gaudet P
Year: 2011
Journal: Brief Bioinform
Title: Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.
Volume: 12
Issue: 5
Pages: 449-62
Publication      
First Author: Mouse Genome Informatics Scientific Curators
Year: 2009
Journal: Database Download
Title: Mouse Microarray Data Integration in Mouse Genome Informatics, the Affymetrix GeneChip Mouse Genome 430 2.0 Array Platform
Publication      
First Author: Mouse Genome Database and National Center for Biotechnology Information
Year: 2000
Journal: Database Release
Title: Entrez Gene Load
Publication        
First Author: Mouse Genome Informatics Scientific Curators
Year: 2005
Title: Obtaining and Loading Genome Assembly Coordinates from Ensembl Annotations
Publication        
First Author: Mouse Genome Informatics Scientific Curators
Year: 2005
Title: Obtaining and loading genome assembly coordinates from NCBI annotations
Publication      
First Author: Bairoch A
Year: 1999
Journal: Database Release
Title: SWISS-PROT Annotated protein sequence database
Publication      
First Author: Mouse Genome Informatics Group
Year: 2003
Journal: Database Procedure
Title: Automatic Encodes (AutoE) Reference
Publication      
First Author: Mouse Genome Informatics (MGI) and The National Center for Biotechnology Information (NCBI)
Year: 2010
Journal: Database Download
Title: Consensus CDS project
Publication      
First Author: Mouse Genome Informatics Scientific Curators
Year: 2009
Journal: Database Download
Title: Mouse Microarray Data Integration in Mouse Genome Informatics, the Affymetrix GeneChip Mouse Gene 1.0 ST Array Platform
Gene
Type: gene
Organism: dog, domestic
Gene
Type: gene
Organism: frog, African clawed
Protein
Organism: Mus musculus/domesticus
Length: 105  
Fragment?: true
Gene
Type: gene
Organism: macaque, rhesus
Gene
Type: gene
Organism: frog, western clawed
Publication
First Author: Kaczanowska M
Year: 2005
Journal: Biochim Biophys Acta
Title: The YrdC protein--a putative ribosome maturation factor.
Volume: 1727
Issue: 2
Pages: 87-96
Gene
Type: gene
Organism: frog, African clawed
Gene
Type: gene
Organism: frog, African clawed
Gene
Type: gene
Organism: frog, African clawed
Gene
Type: gene
Organism: frog, African clawed
Allele  
Name: yrdC domain containing (E.coli); wild type
Allele Type: Not Specified
Allele  
Name: yrdC domain containing (E.coli); gene trap OST407289, Lexicon Genetics
Allele Type: Gene trapped
Allele
Name: yrdC domain containing (E.coli); targeted mutation 1, Velocigene
Allele Type: Targeted
Attribute String: Null/knockout, Reporter
Allele  
Name: yrdC domain containing (E.coli); gene trap OST353409, Lexicon Genetics
Allele Type: Gene trapped
Allele
Name: yrdC domain containing (E.coli); endonuclease-mediated mutation 1, Cyagen Biosciences
Allele Type: Endonuclease-mediated
Attribute String: Null/knockout
Allele
Name: yrdC domain containing (E.coli); targeted mutation 2a, Wellcome Trust Sanger Institute
Allele Type: Targeted
Attribute String: Conditional ready, Null/knockout, Reporter
Allele  
Name: yrdC domain containing (E.coli); gene trap EUCE00143h10, Helmholtz Zentrum Muenchen GmbH
Allele Type: Gene trapped
Strain
Attribute String: coisogenic, endonuclease-mediated mutation, mutant strain
Publication
First Author: Teplova M
Year: 2000
Journal: Protein Sci
Title: The structure of the yrdC gene product from Escherichia coli reveals a new fold and suggests a role in RNA binding.
Volume: 9
Issue: 12
Pages: 2557-66
Protein Domain
Type: Family
Description: TsaB, previously known as YeaZ, has been shown to be involved in N6-threonylcarbamoyladenonsine (t(6)A) biosynthesis, together with YgjD (TsaD), YrdC (TsaC), and YjeE (TsaE) [, ].
Protein Domain
Type: Family
Description: This entry represents the threonylcarbamoyl-AMP synthase, includding RimN or YrdC (also known as TsaC) [], which is involved in the biosynthesis of N6-threonyl-carbamoyl-adenosine (t6A) modified tRNA. This is a universal modification, found at position 37 of ANN decoding tRNAs. Analysis shows that YrdC binds ATP and preferentially binds tRNA-Thr lacking the t6A modification []. Furthermore YrdC has been shown to have threonine-dependent ATPase activity that generates AMP []. YrdC (TsaC) and proteins YgjD (TsaD), YjeE (TsaE), and YeaZ (TsaB), are necessary and sufficient for t6A biosynthesis in vitro, and may constitute a complex.
Protein Domain
Type: Family
Description: This group contains homologues of Escherichia coli YrdC with an additional unique short (~100 aa) C-terminal domain. In accordance with its proposed role as a translation factor, YrdC preferentially binds dsRNA, likely via a depression on the surface of the protein []. However, members of both this group lack the C-terminal domain that has been shown to be essential for the regulatory (probably translational) function of the related two-domain protein SUA5 () [].
Publication
First Author: Jia J
Year: 2002
Journal: Proteins
Title: Crystal structure of the YciO protein from Escherichia coli.
Volume: 49
Issue: 1
Pages: 139-41
Protein Domain
Type: Homologous_superfamily
Description: This superfamily represents a structural domain consisting of segregated alpha and beta regions in 3-layers. Homologous domains with this structure are found in:3,4-dihydroxy-2-butanone 4-phosphate synthase () (DHBP synthase) (RibB) A family of eukaryotic and prokaryotic hypothetical proteins that includes YrdC and YciO from Escherichia coli and MTH1692 from the archaea Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum)DHBP synthase RibB catalyses the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate, the latter serving as the biosynthetic precursor for the xylene ring of riboflavin []. In Photobacterium leiognathi, the riboflavin synthesis genes ribB (DHBP synthase), ribE (riboflavin synthase), ribH (lumazone synthase) and ribA (GTP cyclohydrolase II) all reside in the lux operon []. RibB is sometimes found as a bifunctional enzyme with GTP cyclohydrolase II that catalyses the first committed step in the biosynthesis of riboflavin (). No sequences with significant homology to DHBP synthase are found in the metazoa.The YrdC family of hypothetical proteins are widely distributed in eukaryotes and prokaryotes and occur as: (i) independent proteins, (ii) with C-terminal extensions, and (iii) as domains in larger proteins, some of which are implicated in regulation []. YrdC from Escherichia coli preferentially binds to double-stranded RNA and DNA. YrdC is predicted to be an rRNA maturation factor, as deletions in its gene lead to immature ribosomal 30S subunits and, consequently, fewer translating ribosomes []. Therefore, YrdC may function by keeping an rRNA structure needed for proper processing of 16S rRNA, especially at lower temperatures. Threonylcarbamoyl-AMP synthase (Sua5) is an example of a multi-domain protein that contains an N-terminal YrdC-like domain and a C-terminal Sua5 domain. Sua5 was identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a translation initiation defect in the cytochrome c gene and is required for formation of a threonylcarbamoyl group on adenosine at position 37 in tRNAs [, ]. HypF is involved in the synthesis of the active site of [NiFe]-hydrogenases [].
Protein
Organism: Mus musculus/domesticus
Length: 280  
Fragment?: false
Publication  
First Author: Richter G
Year: 1997
Journal: Methods Enzymol
Title: Biosynthesis of riboflavin: 3,4-dihydroxy-2-butanone-4-phosphate synthase.
Volume: 280
Pages: 374-82
Publication
First Author: Lin JW
Year: 2001
Journal: Biochem Biophys Res Commun
Title: Riboflavin synthesis genes ribE, ribB, ribH, ribA reside in the lux operon of Photobacterium leiognathi.
Volume: 284
Issue: 3
Pages: 587-95
Publication
First Author: Deutsch C
Year: 2012
Journal: J Biol Chem
Title: Biosynthesis of threonylcarbamoyl adenosine (t6A), a universal tRNA nucleoside.
Volume: 287
Issue: 17
Pages: 13666-73
Publication
First Author: El Yacoubi B
Year: 2009
Journal: Nucleic Acids Res
Title: The universal YrdC/Sua5 family is required for the formation of threonylcarbamoyladenosine in tRNA.
Volume: 37
Issue: 9
Pages: 2894-909
Publication
First Author: Na JG
Year: 1992
Journal: Genetics
Title: Isolation and characterization of SUA5, a novel gene required for normal growth in Saccharomyces cerevisiae.
Volume: 131
Issue: 4
Pages: 791-801
Publication
First Author: Agari Y
Year: 2008
Journal: Proteins
Title: X-ray crystal structure of a hypothetical Sua5 protein from Sulfolobus tokodaii strain 7.
Volume: 70
Issue: 3
Pages: 1108-11
Publication
First Author: Paschos A
Year: 2002
Journal: J Biol Chem
Title: HypF, a carbamoyl phosphate-converting enzyme involved in [NiFe] hydrogenase maturation.
Volume: 277
Issue: 51
Pages: 49945-51
Publication
First Author: Zheng L
Year: 2005
Journal: FEMS Microbiol Lett
Title: Identification of an essential glycoprotease in Staphylococcus aureus.
Volume: 245
Issue: 2
Pages: 279-85
Publication
First Author: Zheng L
Year: 2007
Journal: J Bacteriol
Title: Conditional mutation of an essential putative glycoprotease eliminates autolysis in Staphylococcus aureus.
Volume: 189
Issue: 7
Pages: 2734-42
Protein Domain
Type: Family
Description: This entry represents the TsaD protein family that is widely distributed. TsaD and its archaeal homologue Kae1 () belong to the Kae1/TsaD family (), a conserved protein family with unknown function.This entry includes bacterial TsaD and its homologues, such as Qri7 (localize to the mitochondria) from budding yeast []. TsaD (also known as Gcp or YgjD) was originally described as a glycoprotease essential for cell viability []and a critical mediator involved in the modification of cell wall peptidoglycan synthesis and/or cell division []. Gcp is a member of the Kae1/TsaD family, required for the formation of a threonylcarbamoyl group on adenosine at position 37 in tRNAs that read codons beginning with adenine []. YgjD has been renamed as TsaD, and it has been shown that YgjD and proteins YrdC (TsaC), YjeE (TsaE), and YeaZ (TsaB), are necessary and sufficient for t6A biosynthesis in vitro, and may constitute a complex [].The first characterised member of the Kae1/TsaD family was annotated as Gcp for O-sialoglycoprotein endopeptidase [], but this activity could not be confirmed []. Later, its homologue, Kae1 from Pyrococcus abyssi, has been shown to have DNA-binding properties and apurinic-endonuclease activity []. Members of this family have since been studied in yeast, archaea and bacteria resulting in sometimes conflicting data, several proposed functions and annotations but no definitive characterisation. For instance, some members have been linked to DNA maintenance in bacteria and mitochondria []and transcription regulation and telomere homeostasis in eukaryotes [, ], but their function remained unclear. Recent research indicates that this family is involved in the biosynthesis of N6-threonylcarbamoyl adenosine, a universal modification found at position 37 of tRNAs that read codons beginning with adenine [].
Publication
First Author: Lauhon CT
Year: 2012
Journal: Biochemistry
Title: Mechanism of N6-threonylcarbamoyladenonsine (t(6)A) biosynthesis: isolation and characterization of the intermediate threonylcarbamoyl-AMP.
Volume: 51
Issue: 44
Pages: 8950-63