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 Ga0222712_10033941

Scaffold Ga0222712_10033941


Overview

Basic Information
Taxon OID3300021963 Open in IMG/M
Scaffold IDGa0222712_10033941 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_657D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3994
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (84.62%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.1516Long. (o)-121.6883Alt. (m)Depth (m)10
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006587Metagenome369Y
F014840Metagenome259Y
F033405Metagenome177Y
F048799Metagenome147Y
F100665Metagenome102Y

Sequences

Protein IDFamilyRBSSequence
Ga0222712_1003394110F033405GGAGMINKKTDEQLIEAVNQYMEKYPNATRNQIILHATGSAERVRKLDKEGKIKLPKALPKGSNSNWNRYFSLTSETNSSRKGMKYSV
Ga0222712_1003394112F048799GAGMTDVGVQSNVVTSLKNTQNKRRKIVADAKLNNFSPSARHAILEFEDWQRRVFAKNAKKGWRFFQPDTVDKPTPRSAKEAWNGIYESEDRIVKDEKITNRIMLGLFLAFVVVLSIL
Ga0222712_100339412F100665AGGAGMAKPYIKVISIKDTKAGDCKLTLDMNQAGREVILQAGIQKALSDYMIANTKKLSFWNKLQICWGILK
Ga0222712_100339417F006587GGAGGMDSKKYDGTGFILVGLIVGCCITWGIMKYNNTQTKYKMNLKCIQGELYEEIRPNMFVKSHLDCFEQRSF
Ga0222712_100339419F014840AGGTGGMVPFSYAVVDSDGEVIRQYRWSAKEAKWHKDQGKNVVKLDKPIEVKEDLFKLVGECLF
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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