Ligands 6 Unique; ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions; COA Query on COA. Cells hybridizing to probes specific to the DNA sequences were ultrathin filaments under 0.2 um in diameter with an average length of 15 um, although cells were observed with lengths up to 100 um. Possible values are 'Standard', 'Close to Standard' and 'Outlier'.
,Genomic components encoding the proteome
, The European Molecular Biology Laboratory, State Secretariat for Education, Research and Innovation, Download one protein sequence per gene (FASTA), 374847 - Korarchaeum cryptofilum (strain OPF8), Proc. Authors: */ Anamika Kothari1, "The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases." Reviewed-Annotation score: -Protein inferred from homology i. Go to UniProtKB: B1L7P8. Brief Bioinform 17(5);877-90. }); Synonyms: Candidatus Korarchaeum cryptofilum OPF8, korarchaeote OPF1-KOR, Korarchaeum cryptofilum OPF8, Candidatus Korarchaeum cryptofilum strain OPF8, Candidatus Korarchaeum cryptofilum str. Initiate the grant application process for experimentally validating this gene (Important notice about COMBREX grants.) Go to UniProtKB: B1L7P8. // User sites can define this fn in userWebsiteCustomization.js in NCBI-Taxonomy:374847, Genetic Code Number: // order to programmatically alter the menus. Please cite: Gough, J., Karplus, K., Hughey, R. and Chothia, C. (2001). Download Ideal … Quang Ong1, {autosubmenudisplay: true, 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons), Caspi16: Caspi R, Billington R, Ferrer L, Foerster H, Fulcher CA, Keseler IM, Kothari A, Krummenacker M, Latendresse M, Mueller LA, Ong Q, Paley S, Subhraveti P, Weaver DS, Karp PD (2016). Candidatus Korarchaeum cryptofilum OPF8: Mutation(s): 0 Gene Names: Kcr_0115: Find proteins for B1L7P8 (Korarchaeum cryptofilum (strain OPF8)) Explore B1L7P8 . It consists of the characters 'UP' followed by 9 digits, is stable across releases and can therefore be used to cite a UniProt proteome.,Identifier for the genome assembly (more...)
,The Benchmarking Universal Single-Copy Ortholog (BUSCO) assessment tool is used, for eukaryotic and bacterial proteomes, to provide quantitative measures of UniProt proteome data completeness in terms of expected gene content. oMenuBar.render(); The size of each node corresponds to the number of proteins containing that superfamily. Gene Kcr_0801 from Candidatus Korarchaeum cryptofilum OPF8: ABC-type branched-chain amino acid transport system, permease component Jump to section on this page: Summary Actions Predictions Experimental Validation Supporting Info Pathway Information Linked Genes phenotype. Pallavi Subhraveti1, The levels of indentation indicate a subclass relationship to the class above. OPF8: Contacts : JGI: Collaborators: Karl Stetter, University of Regensburg, Germany. Reviewed-Annotation score: -Protein inferred from homology i. Candidatus Korarchaeum cryptofilum str. Database lists are saved as SmartTables that you can edit from your, ©2019 SRI International, 333 Ravenswood Avenue, Menlo Park, CA 94025-3493. The organism has a partial citric acid cycle in its central metabolism. Place your mouse over a … an experiment that has been published in the scientific literature, an orthologous protein, a record from another database, etc.
Ligands 2 Unique; ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions; ADP Query on ADP. View karyotype Example region. Names: Candidatus Korarchaeum cryptofilum OPF8: Accession numbers: NC_010482: Background: Candidatus Korarchaeum cryptofilum OPF8.This organism is being sequenced for comparative genome analysis. Where possible, reviewed (Swiss-Prot) protein sequences are chosen as the representatives.,The proteome identifier (UPID) is the unique identifier assigned to the set of proteins that constitute the proteome. Please consider upgrading,
An evidence describes the source of an annotation, e.g. onMenuBarReady.fire([]); The numbers in parentheses … Candidatus Korarchaeum cryptofilum OPF8 an uncharged tRNA How to Navigate: A class hierarchy (ontology) allows you to retrieve information according to categories of interest. NCBI BioProject:PRJNA224116, Go to UniProtKB: B1L7P8. Summary of Candidatus Korarchaeum cryptofilum, Strain OPF8, version 24.1 . Development of this PGDB was supported by grant GM080746 from the National Institutes of Health. OPF8 Equivalent name Candidatus Korarchaeum cryptofilum strain OPF8 Scientific name Candidatus Korarchaeum cryptofilum OPF8 Synonym korarchaeote OPF1-KOR Synonym Korarchaeum cryptofilum OPF8. Unification Links: NCBI-Taxonomy:498846 . // Add dynamically all the menubar commands and menus here if need be. 1 SRI International . addSiteSpecificMenuItems(); This reaction is the second ether-bond-formation step in the biosynthesis … However, the K. cryptofilum genome appears to be a hybrid of crenarchaeal and euryarchaeal genes and it is unclear if this is the result of horizontal gene transfer or evidence of a common … Candidatus Korarchaeum cryptofilum OPF8: Mutation(s): 0 Gene Names: Kcr_0115: Find proteins for B1L7P8 (Korarchaeum cryptofilum (strain OPF8)) Explore B1L7P8 . Peter D Karp1. We'd like to inform you that we have updated our Privacy Notice to comply Summary: This Pathway/Genome Database (PGDB) was generated on 20-Sep-2017 from the annotated genome of Candidatus Korarchaeum cryptofilum OPF8, as obtained from … Elkins JG, Podar M, Graham DE, Makarova KS, Wolf Y, Randau L, Hedlund BP, Brochier-Armanet C, Kunin V, Anderson I, et al. Taxonomic Lineage: Download Ideal … Stand Genomic Sci 5(3);424-9. Korarchaeum cryptofilum (strain OPF8) Status. Each node represents a superfamily. For each gene, a single representative protein sequence is chosen from the proteome. Summary of Candidatus Korarchaeum cryptofilum, Strain OPF8, version 24.5 . 1 SRI International . Ligands 4 Unique; ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions; ADP Query on ADP. It has not undergone any manual curation or review, and may contain errors. BUSCO scores include percentages of complete (C) single-copy (S) genes, complete (C) duplicated (D) genes, fragmented (F) and missing (F) genes, as well as the total number of orthologous clusters (n) used in the BUSCO assessment.
,Complete Proteome Detector (CPD) is an algorithm which employs statistical evaluation of the completeness and quality of proteomes in UniProt, by looking at the sizes of taxonomically close proteomes. YAHOO.util.Event.onContentReady("pathwayToolsMenubar", function () { hidedelay: 700 Candidatus Korarchaeum cryptofilum OPF8 1) Taxonomy ID: 374847 (for references in articles please use NCBI:txid374847) current name. ©2019 SRI International, 333 Ravenswood Avenue, Menlo Park, CA 94025-3493 SRI … In the class hierarchy that follows, each line names a single class of biological objects. Candidatus Korarchaeum cryptofilum str. BIOSAMPLE:SAMN02598368, Candidatus Korarchaeum cryptofilum OPF8: Mutation(s): 0 Gene Names: Kcr_0115: Find proteins for B1L7P8 (Korarchaeum cryptofilum (strain OPF8)) Explore B1L7P8 . Protein sets from fully sequenced genomes. Summary: This Pathway/Genome Database (PGDB) was generated on 20-Sep-2017 from the annotated genome of Candidatus Korarchaeum cryptofilum OPF8, as obtained from … Kcr_1372 or Chromosome:1369724-1370401 or synthetase. Pairs are all adjacent. on the screen. The organism uses enzymes such as peptidase, transaminases, and ATPase. Candidatus Korarchaeum cryptofilum OPF8: Mutation(s): 0 Gene Names: Kcr_0115: Find proteins for B1L7P8 (Korarchaeum cryptofilum (strain OPF8)) Explore B1L7P8 . Acad. Protein Feature View Expand: Reference Sequence; Small Molecules. Log in and reload this page to access your saved database lists. James Elkins, Oak Ridge National Laboratory: Request DNA: Karl Stetter: Interesting Sites: Funding : This work was performed under the auspices of the US Department of Energy's Office of Science, Biological and Environmental Research Program and … Download Ideal … $$('.yuimenu').each(Element.show); Authors: Pallavi Subhraveti 1, Quang Ong 1, Ingrid Keseler 1, Anamika Kothari 1, Ron Caspi 1, Peter D Karp 1. Instantiate a MenuBar, passing in the id of the HTML element This hyperthermophilic organism was isolated from sediment and hot spring samples from Obsidian Pool, Yellowstone National Park, USA. Ron Caspi1, "The pathway tools pathway prediction algorithm." Summary: [Karp16, Candidatus Korarchaeum Candidatus Korarchaeum cryptofilum Candidatus Korarchaeum cryptofilum OPF8 Candidatus Methanodesulfokores Candidatus Methanodesulfokores washburnensis korarchaeote SRI-306 environmental samples uncultured korarchaeote uncultured korarchaeote pBA5 uncultured korarchaeote pJP27 Protein Feature View Expand: Reference Sequence; Small Molecules. Ligands 2 Unique; ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions; COA Query on COA. // Render the MenuBar instance Report Errors or Provide Feedback Page generated by Pathway Tools version 24.0 (software by SRI International) on Mon Dec 7, 2020, BIOCYC16. K. cryptofilum OPF8 is a member of a large group of deep-branching unclassified Archaea that may represent an entirely new archaeal kingdom (Korarchaeota). Natl. Candidatus Korarchaeum cryptofilum OPF8: Mutation(s): 0 Gene Names: Kcr_0115: Find proteins for B1L7P8 (Korarchaeum cryptofilum (strain OPF8)) Explore B1L7P8 . Candidatus Korarchaeum cryptofilum OPF8. Data source record id: GCF_000019605.1 (NCBI assembly accession): Data source organism name: Candidatus Korarchaeum cryptofilum OPF8: … Korarchaeum cryptofilum K. cryptofilum OPF8 is a member of a large group of deep-branching unclassified Archaea that may represent an entirely new archaeal kingdom (Korarchaeota). Download Ideal … updateBannerClass(); Candidatus Korarchaeum cryptofilum, [Caspi16]. U.S.A. 105:8102-8107(2008), C:88.7%[S:88.7%,D:0%],F:2.6%,M:8.8%,n:194 archaea_odb10. var oMenuBar = new YAHOO.widget.MenuBar("pathwayToolsMenubar", Protein Feature View Expand: Reference Sequence; Small Molecules. Go to UniProtKB: B1L7P8. Authors: Pallavi Subhraveti 1, Quang Ong 1, Ingrid Keseler 1, Anamika Kothari 1, Ron Caspi 1, Peter D Karp 1. The connections link domains which form a pair. Candidatus Korarchaeum, The enzymes in it, such as succinyl-CoA ligase are either used for the degradation or biosynthesis of the amino acid glutamate. Selenocysteine residues are highlighted in red. Ingrid Keseler1, Converts heme B (protoheme IX) to heme O by substitution of the vinyl group on carbon 2 of heme B porphyrin ring with a hydroxyethyl farnesyl side group. Genome assembly: … Direct sub-taxa of Candidatus Korarchaeum cryptofilum: Candidatus Korarchaeum cryptofilum OPF8. Korarchaeum cryptofilum. Nucleic Acids Res 44(D1);D471-80. There is a paracrystalline S layer surrounding the cells. Download Ideal … It grows best at about 85 degrees Celsius, under strictly anaerobic conditions at pH 6.5. OPF8, candidatus name 1) Candidatus Korarchaeum cryptofilum strain OPF8, candidatus name 1) NCBI BLAST name: … }); The genome of … PMID: 26454094. Go to UniProtKB: B1L7P8. You are using a version of browser that may not display all the features of this website. Candidatus Korarchaeum cryptofilum OPF8 (archaea) genome assembly ASM1960v1 from US DOE Joint Genome Institute [GCA_000019605.1 GCF_000019605.1] Candidatus Korarchaeum cryptofilum OPF8 Disclaimer: The NCBI taxonomy database is not an authoritative source for nomenclature or classification - please consult the relevant scientific literature for the most reliable information. Candidatus Korarchaeum cryptofilum OPF8 uid58601; Predicted redox-active catalytic cysteine residues are highlighted in blue. Sci. Domain pairs in Candidatus Korarchaeum cryptofilum OPF8. with Europe’s new General Data Protection Regulation (GDPR) that applies since 25 May 2018. addContextSpecificToolbarMenus(); As it is at present uncultured it was assembled from whole genome shotgun sequencing. Candidatus Korarchaeum cryptofilum OPF8. Candidatus Korarchaeum cryptofilum: Taxonomy navigation › Candidatus Korarchaeum. Candidatus Korarchaeum cryptofilum OPF8, Unification Links: Ligands 3 Unique; ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions; COA Query on COA. "Pathway Tools version 19.0 update: software for pathway/genome informatics and systems biology." Archaea, About Candidatus Korarchaeum cryptofilum OPF8. Overview This hyperthermophilic organism was isolated from sediment and hot spring samples from Obsidian Pool, Yellowstone National Park, USA. OPF8 . Provider European Nucleotide Archive | Taxonomy ID 374847. e.g. Systems used to automatically annotate proteins with high accuracy: Select one of the options below to target your search: Select item(s) and click on "Add to basket" to create your own collection here (400 entries max). Protein Feature View Expand: Reference Sequence; Small Molecules. shadow: false, }); Shift-click to select a range; Ctrl-click to select multiple non-contiguous organisms. Candidatus Korarchaeota, cellular organisms, PMID: 26527732, Karp11: Karp PD, Latendresse M, Caspi R (2011). Karp11] using MetaCyc version 21.1 Korarchaeum cryptofilum (strain OPF8) Status. PMID: 22675592, Karp16: Karp PD, Latendresse M, Paley SM, Krummenacker M, Ong QD, Billington R, Kothari A, Weaver D, Lee T, Subhraveti P, Spaulding A, Fulcher C, Keseler IM, Caspi R (2016). */ Function i. TACK group, Actions You Can Take. Note: if you create a user account and log in, you can save your database lists for next time. The predicted gene set suggests that K.cryptofilum grows heterotrophically, using a variety of peptide and amino acid degradation pathways. Protein Feature View Expand: Reference Sequence; Small Molecules. representing the MenuBar. /* This code needs to be here to avoid the menu and other Yahoo widgets to flicker This Pathway/Genome Database (PGDB) was generated on 20-Sep-2017 from the annotated genome of Candidatus Korarchaeum cryptofilum OPF8, as obtained from RefSeq (annotation date: 17-APR-2017). The PGDB was created computationally by the PathoLogic component of the Pathway Tools software (version 21.5) All lower taxonomy nodes (1) Common name i-Synonym i-Other names i ›"Candidatus Korarchaeum cryptofilum" Elkins et al. YAHOO.util.Event.onAvailable("body", function () { // Do this as early as possible to minimize flicker: "Assignment of Homology to Genome … Rank: strain T number: T00668: Org code: kcr: Aliases: KORCO, 374847: Full name: Candidatus Korarchaeum cryptofilum: Definition: Candidatus Korarchaeum cryptofilum OPF8: Annotation Candidatus Korarchaeum cryptofilum OPF8 (NCBI TaxID: 374847) Hide | Top. As it is at present uncultured it was assembled from whole genome shotgun sequencing. Candidatus Korarchaeum cryptofilum is an ultrathin filamentous heterotroph, mostly living through anaerobic metabolism of peptide fermentation and protein broken down into H2. Candidatus Korarchaeum cryptofilum OPF8 Disclaimer: The NCBI taxonomy database is not an authoritative source for nomenclature or classification - please consult the relevant scientific literature for the most reliable information. The width of each connection is proportional to the number of proteins containing the domain pair. /* Help pages, FAQs, UniProtKB manual, documents, news archive and Biocuration projects. It grows best at about 85 degrees Celsius, under strictly anaerobic conditions at pH 6.5. Information and statistics.
,When browsing through different UniProt proteins, you can use the 'basket' to save them, so that you can back to find or analyse them later.
,Number of protein entries associated with this proteome: UniProtKB entries for regular proteomes or UniParc entries for redundant proteomes (more...)
,This is the total number of unique genes found in the proteome set, algorithmically computed. Function i. Prenyltransferase that catalyzes the transfer of the geranylgeranyl moiety of geranylgeranyl diphosphate (GGPP) to the C2 hydroxyl of (S)-3-O-geranylgeranylglyceryl phosphate (GGGP). Candidatus Korarchaeum cryptofilum OPF8, candidatus name 1) equivalent: Candidatus Korarchaeum cryptofilum str. Candidatus Korarchaeum cryptofilum Click on organism name to get more information.
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