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 Ga0070712_100152500

Scaffold Ga0070712_100152500


Overview

Basic Information
Taxon OID3300006175 Open in IMG/M
Scaffold IDGa0070712_100152500 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L8-1 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1776
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium 13_2_20CM_2_64_7(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan: Kellogg Biological Station
CoordinatesLat. (o)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002423Metagenome / Metatranscriptome560Y
F029835Metagenome / Metatranscriptome187Y

Sequences

Protein IDFamilyRBSSequence
Ga0070712_1001525002F029835GGAGGMNNLSQPPQPAEPDMVLLFLGSFLEDLLHAPARDDAKLDALAMQILDEDPKTLLGLVIRVRAEKWLRRHLWTLAFDSLSPLEQGVRVVIDSAMRYRQRPARTSLFCG*
Ga0070712_1001525003F002423AGGAGGMAPKPKSEPARFVFTVGMVLAMALTILTITADRDLAARGASMIYHPQLLLLY*
Ga0070712_1001525004F029835N/AMNDSSQPPQSAQPDMALLLLGSFFEDLHHAPVRDDAKLDALAMQILDEGPKTLPGLVIRARAEKWLRRHLWTLAFDSLSPLERGVCVVIDCAMRLRPARTSLFCG*
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