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 Ga0209590_10078577

Scaffold Ga0209590_10078577


Overview

Basic Information
Taxon OID3300027882 Open in IMG/M
Scaffold IDGa0209590_10078577 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con1.8 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1920
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: California, Eel River Critical Zone Observatory
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001565Metagenome / Metatranscriptome670Y
F003322Metagenome / Metatranscriptome494Y
F004831Metagenome / Metatranscriptome422Y

Sequences

Protein IDFamilyRBSSequence
Ga0209590_100785771F004831AGAAGGMRASKVLALIALFVTTTFAQAGWKEFTFPDGNFRVVFPESPQKQMDAERNLHQFSANVGAESYGLAYADYSPSTDWESAVNGERDLILNGLGGSVVDEKRTSVEGYPGKWIRFVGQNTSGELAIYFVGHRLYSLHAFAPKGASRPENFSTFLNSFRLLSKPKA
Ga0209590_100785773F003322AGGAGMVCEELEQLEWDFIQARAGSLDIDSLGWTNCEFSCLDAILDHKREGHQGERCSGELKCGGLLR
Ga0209590_100785774F001565AGGAGMSTGISKSLDSRYWRQLYKAALSEIDKSKLPERIAEAEKAVVLRARELFQAAGDNGEETEALDDVMYALRALRSNYQHLGVS
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