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 Ga0224502_10011419

Scaffold Ga0224502_10011419


Overview

Basic Information
Taxon OID3300022218 Open in IMG/M
Scaffold IDGa0224502_10011419 Open in IMG/M
Source Dataset NameSediment microbial communities from San Francisco Bay, California, United States - SF_Oct11_sed_USGS_13
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3231
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.03Long. (o)-122.37Alt. (m)Depth (m)9
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F045425Metagenome153N
F080627Metagenome115N

Sequences

Protein IDFamilyRBSSequence
Ga0224502_100114192F080627GGAVTYATALTAAIARLVAAGLVECRSPNGLLGAGAPRGHRSVACLPAGDRKQRSREAARVDGLRVTARFTVQLGHELKPGAGLEAPSQALQDLHSAQRYLIQPGTSLTTEGALTFGPVTTTRLQGGAYMIQVFELGITFNLDMSAP
Ga0224502_100114193F045425GGAVPDATPYSARWTGPVLIPRGQDTTVSVSVELDGSAPTVSAVTFSLWDSSGTVLVDAGSASESGGLLSFTVTASVTTGQSLGQGYLLKFSATIGGDRHDFYNEAALCLSRLYPPVGTTDLTNRYSRLAALQTTGASDLQKFITDAWTEMTSRLFSEGLPFWRMRTPSALRPWLTAQALVFALDDLALTLGDGGPYRDEARRIEQTLPRLYGQIRSRMDTDEDNTVSEEQQAASPVIILSSGRMGRYTR
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