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Search results 1 to 100 out of 110 for Yrdc

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Hits by Strain

Type Details Score
Gene
79693 | YRDC
Type: gene
Organism: human
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Gene
548554 | yrdc
Type: gene
Organism: frog, western clawed
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Gene
319113 | Yrdc
Type: gene
Organism: rat
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Gene
456764 | YRDC
Type: gene
Organism: chimpanzee
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Gene
512062 | YRDC
Type: gene
Organism: cattle
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Gene
100855794 | YRDC
Type: gene
Organism: dog, domestic
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Gene
419610 | YRDC
Type: gene
Organism: chicken
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Gene
797343 | yrdc
Type: gene
Organism: zebrafish
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Gene
100424180 | YRDC
Type: gene
Organism: macaque, rhesus
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Protein Coding Gene
MGI:2387201 | Yrdc
Type: protein_coding_gene
Organism: mouse, laboratory
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Protein Coding Gene
MGP_129S1SvImJ_G0028756 | -
Type: protein_coding_gene
Organism: mouse, laboratory
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Protein Coding Gene
MGP_AKRJ_G0028668 | -
Type: protein_coding_gene
Organism: mouse, laboratory
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Protein Coding Gene
MGP_C3HHeJ_G0028452 | -
Type: protein_coding_gene
Organism: mouse, laboratory
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Protein Coding Gene
MGP_C57BL6NJ_G0029180 | -
Type: protein_coding_gene
Organism: mouse, laboratory
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Protein Coding Gene
MGP_CBAJ_G0028418 | -
Type: protein_coding_gene
Organism: mouse, laboratory
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Protein Coding Gene
MGP_FVBNJ_G0028534 | -
Type: protein_coding_gene
Organism: mouse, laboratory
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Protein Coding Gene
MGP_NODShiLtJ_G0028560 | -
Type: protein_coding_gene
Organism: mouse, laboratory
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Protein Coding Gene
MGP_PWKPhJ_G0027606 | -
Type: protein_coding_gene
Organism: mouse, laboratory
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Protein Coding Gene
MGP_PahariEiJ_G0028784 | -
Type: protein_coding_gene
Organism: Mus pahari
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Protein Coding Gene
MGP_CAROLIEiJ_G0026453 | -
Type: protein_coding_gene
Organism: Mus caroli
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Protein Coding Gene
MGP_AJ_G0028715 | -
Type: protein_coding_gene
Organism: mouse, laboratory
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Protein Coding Gene
MGP_BALBcJ_G0028738 | -
Type: protein_coding_gene
Organism: mouse, laboratory
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Protein Coding Gene
MGI_C57BL6J_2387201 | -
Type: protein_coding_gene
Organism: mouse, laboratory
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Protein Coding Gene
MGP_CASTEiJ_G0027885 | -
Type: protein_coding_gene
Organism: mouse, laboratory
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Protein Coding Gene
MGP_DBA2J_G0028567 | -
Type: protein_coding_gene
Organism: mouse, laboratory
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Protein Coding Gene
MGP_LPJ_G0028668 | -
Type: protein_coding_gene
Organism: mouse, laboratory
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Protein Coding Gene
MGP_NZOHlLtJ_G0029218 | -
Type: protein_coding_gene
Organism: mouse, laboratory
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Protein Coding Gene
MGP_WSBEiJ_G0027965 | -
Type: protein_coding_gene
Organism: mouse, laboratory
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Protein Coding Gene
MGP_SPRETEiJ_G0027432 | -
Type: protein_coding_gene
Organism: Mus spretus
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Publication
2675563 | J:10021
 
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
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Gene
100128237 | YRDCP2
Type: gene
Organism: human
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Gene
100420501 | YRDCP1
Type: gene
Organism: human
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Gene
100861429 | YRDCP3
Type: gene
Organism: human
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Publication
16024787 | J:100021
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
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Publication
12477932 | J:82808
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
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Publication
- | J:136110
     
First Author: Velocigene
Year: 2008
Journal: MGI Direct Data Submission
Title: Alleles produced for the KOMP project by Velocigene (Regeneron Pharmaceuticals)
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Publication
- | J:155845
     
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
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Publication
- | J:326541
       
First Author: Cyagen Biosciences Inc.
Year: 2022
Title: Cyagen Biosciences Website.
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Publication
21677750 | J:173534
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
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Publication
- | J:148605
     
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
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Publication
- | J:72247
       
First Author: DDB, FB, MGI, GOA, ZFIN curators
Year: 2001
Title: Gene Ontology annotation through association of InterPro records with GO terms
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Publication
14610273 | J:86696
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
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Publication
- | J:342604
       
First Author: UniProt-GOA
Year: 2012
Title: Gene Ontology annotation based on UniProtKB/Swiss-Prot Subcellular Location vocabulary mapping, accompanied by conservative changes to GO terms applied by UniProt
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Publication
- | J:85000
       
First Author: Mouse Genome Informatics Scientific Curators
Year: 2003
Title: MGI Sequence Curation Reference
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Publication
- | J:78475
       
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
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Publication
- | J:342587
       
First Author: AgBase, BHF-UCL, Parkinson's UK-UCL, dictyBase, HGNC, Roslin Institute, FlyBase and UniProtKB curators
Year: 2011
Title: Manual transfer of experimentally-verified manual GO annotation data to orthologs by curator judgment of sequence similarity
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Publication
- | J:141210
     
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
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Publication
16141072 | J:99680
First Author: Carninci P
Year: 2005
Journal: Science
Title: The transcriptional landscape of the mammalian genome.
Volume: 309
Issue: 5740
Pages: 1559-63
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Publication
- | J:68900
     
First Author: The Jackson Laboratory Mouse Radiation Hybrid Database
Year: 2004
Journal: Database Release
Title: Mouse T31 Radiation Hybrid Data Load
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Publication
- | J:164563
       
First Author: The Gene Ontology Consortium
Year: 2010
Title: Automated transfer of experimentally-verified manual GO annotation data to mouse-human orthologs
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Publication
21267068 | J:153498
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
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Publication
- | J:157972
     
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).
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Publication
- | J:57747
     
First Author: MGI Genome Annotation Group and UniGene Staff
Year: 2015
Journal: Database Download
Title: MGI-UniGene Interconnection Effort
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Publication
- | J:75000
       
First Author: Mouse Genome Informatics Scientific Curators
Year: 2002
Title: Mouse Genome Informatics Computational Sequence to Gene Associations
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Publication
- | J:161428
       
First Author: Marc Feuermann, Huaiyu Mi, Pascale Gaudet, Dustin Ebert, Anushya Muruganujan, Paul Thomas
Year: 2010
Title: Annotation inferences using phylogenetic trees
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Publication
- | J:262123
     
First Author: Allen Institute for Brain Science
Year: 2004
Journal: Allen Institute
Title: Allen Brain Atlas: mouse riboprobes
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Publication
- | J:155221
     
First Author: Mouse Genome Informatics
Year: 2010
Journal: Database Release
Title: Protein Ontology Association Load.
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Publication
- | J:144087
     
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
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Publication
- | J:63103
     
First Author: Mouse Genome Database and National Center for Biotechnology Information
Year: 2000
Journal: Database Release
Title: Entrez Gene Load
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Publication
- | J:144086
     
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
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Publication
- | J:155721
     
First Author: Mouse Genome Informatics (MGI) and The National Center for Biotechnology Information (NCBI)
Year: 2010
Journal: Database Download
Title: Consensus CDS project
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Publication
- | J:85324
     
First Author: Mouse Genome Informatics Group
Year: 2003
Journal: Database Procedure
Title: Automatic Encodes (AutoE) Reference
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Publication
- | J:53168
     
First Author: Bairoch A
Year: 1999
Journal: Database Release
Title: SWISS-PROT Annotated protein sequence database
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Publication
- | J:91388
       
First Author: Mouse Genome Informatics Scientific Curators
Year: 2005
Title: Obtaining and Loading Genome Assembly Coordinates from Ensembl Annotations
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Publication
- | J:90438
       
First Author: Mouse Genome Informatics Scientific Curators
Year: 2005
Title: Obtaining and loading genome assembly coordinates from NCBI annotations
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Gene
111091412 | LOC111091412
Type: gene
Organism: dog, domestic
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Gene
121397282 | LOC121397282
Type: gene
Organism: frog, African clawed
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Protein
G8JL83
Organism: Mus musculus/domesticus
Length: 105  
Fragment?: true
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Gene
100428506 | LOC100428506
Type: gene
Organism: macaque, rhesus
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Gene
108648340 | yrdcl
Type: gene
Organism: frog, western clawed
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Publication
15716138 | -
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
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Gene
108705666 | yrdcl.S
Type: gene
Organism: frog, African clawed
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Gene
108705686 | yrdcl.L
Type: gene
Organism: frog, African clawed
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Gene
398509 | yrdc.L
Type: gene
Organism: frog, African clawed
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Gene
496333 | yrdc.S
Type: gene
Organism: frog, African clawed
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Allele
Yrdc<+> | MGI:3586637
 
Name: yrdC domain containing (E.coli); wild type
Allele Type: Not Specified
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Allele
Yrdc<Gt(OST353409)Lex> | MGI:4291226
 
Name: yrdC domain containing (E.coli); gene trap OST353409, Lexicon Genetics
Allele Type: Gene trapped
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Allele
Yrdc<Gt(OST407289)Lex> | MGI:4307925
 
Name: yrdC domain containing (E.coli); gene trap OST407289, Lexicon Genetics
Allele Type: Gene trapped
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Allele
Yrdc<tm1(KOMP)Vlcg> | MGI:4951168
Name: yrdC domain containing (E.coli); targeted mutation 1, Velocigene
Allele Type: Targeted
Attribute String: Null/knockout, Reporter
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Allele
Yrdc<em1Cya> | MGI:7587599
Name: yrdC domain containing (E.coli); endonuclease-mediated mutation 1, Cyagen Biosciences
Allele Type: Endonuclease-mediated
Attribute String: Null/knockout
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Allele
Yrdc<Gt(EUCE00143h10)Hmgu> | MGI:4396699
 
Name: yrdC domain containing (E.coli); gene trap EUCE00143h10, Helmholtz Zentrum Muenchen GmbH
Allele Type: Gene trapped
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Allele
Yrdc<tm2a(EUCOMM)Wtsi> | MGI:5050943
Name: yrdC domain containing (E.coli); targeted mutation 2a, Wellcome Trust Sanger Institute
Allele Type: Targeted
Attribute String: Conditional ready, Null/knockout, Reporter
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Strain
MGI:7593322 | C57BL/6J-Yrdc<em1Cya>/Cya
Attribute String: coisogenic, endonuclease-mediated mutation, mutant strain
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Publication
11206077 | -
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
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Protein Domain
IPR022496 | T6A_TsaB
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) [, ].
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Protein Domain
IPR023535 | TC-AMP_synthase
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.
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Protein Domain
IPR011416 | YdrC-type_chlamyd
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 () [].
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Publication
12211024 | -
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
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Protein Domain
IPR017945 | DHBP_synth_RibB-like_a/b_dom
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 [].
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Protein
Q3U5F4
Organism: Mus musculus/domesticus
Length: 280  
Fragment?: false
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Publication
9211332 | -
 
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
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Publication
11396941 | -
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
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Publication
22378793 | -
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
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Publication
19287007 | -
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
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Publication
1325384 | -
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
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Publication
18004774 | -
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
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Publication
12377778 | -
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
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Publication
15837383 | -
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
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Publication
17237169 | -
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
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Protein Domain
IPR022450 | TsaD
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 [].
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MouseMine is a collaboration between MGI at The Jackson Laboratory and the InterMine project at the Cambridge Systems Biology Centre. MouseMine is funded through a grant from the NIH/NHGRI.The Jackson Laboratory makes no representation about the suitability or accuracy of this software or data for any purpose, and makes no warranties, either express or implied, including merchantability and fitness for a particular purpose or that the use of this software or data will not infringe any third party patents, copyrights, trademarks, or other rights. the software and data are provided "as is". This software and data are provided to enhance knowledge and encourage progress in the scientific community and are to be used only for research and educational purposes. Any reproduction or use for commercial purpose is prohibited without the prior express written permission of the Jackson Laboratory.

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