NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0102861_1005058

Scaffold Ga0102861_1005058


Overview

Basic Information
Taxon OID3300007544 Open in IMG/M
Scaffold IDGa0102861_1005058 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1449B-3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3017
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (14.29%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2327Long. (o)-123.9168Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F010915Metagenome / Metatranscriptome297Y
F018368Metagenome / Metatranscriptome235N
F044319Metagenome / Metatranscriptome154N
F076899Metagenome / Metatranscriptome117Y

Sequences

Protein IDFamilyRBSSequence
Ga0102861_10050581F018368N/AMTITTLTTKGQKISNQIVSADVIEINQGPFSFTALTETIVTEEDKIVIKYEMDGEMCNHEITNDMLNNAHVEDGHIVFAWGTQLSIS
Ga0102861_10050582F010915GAGMKINWPPHNMIVIVKVMLDLYTLSYAKYSGNDIHQCIKYNLSADDVAQFLGNN*
Ga0102861_10050583F044319N/AMKIIDLIASQAGLARFASFTYCSRSTGEVARYTLQLGFSYRNVLQKSIMELEVDKQIMADLPRQAADEILASLNASLSGTQTKYTKKDIYEDYKLDGKTIQGIKINKNDGSLKIFGLLSSKVQVSAPVIPRKEVKSAPLTIEKNRITKDLPIGRFREFALDNLVMAKLNGETLVLE*
Ga0102861_10050585F076899N/AMNFSSVNTGTVISGKQGYDIAVTAAINSFTANGVSVPSSITNQVYLSNAPLLVTGNITSATVGTIFYYYEGNVK*
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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