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 Ga0207701_10092038

Scaffold Ga0207701_10092038


Overview

Basic Information
Taxon OID3300025930 Open in IMG/M
Scaffold IDGa0207701_10092038 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere bulk soil microbial communities from Kellogg Biological Station, Michigan, USA, with PhiX - S5 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2727
Total Scaffold Genes2 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Novel Protein Genes1 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (100.00%)
Associated Families1

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Sphingomonadales → Sphingomonadaceae → Sphingomonas → Sphingomonas sediminicola(Source: UniRef50)

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameKellogg Biological Station, Michigan, USA
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F019547Metagenome229Y

Sequences

Protein IDFamilyRBSSequence
Ga0207701_100920382F019547GGAMSVRTSRVTRKLFTRVGMCVLATTALMLPAATPSDAKPAFKPVIIRGIPSTGPASNELQLVYLASFPNGSLEPSVDKMNAGPMVPGDPLIPGSNPTVSAAPGEIVVSIHRPLGLSPDAIPAESIFAPVNFGPGSIVRLRATFIAPVGPYATTGGFAIGVGARIGGKDDLPLEPRVFVTVNARPNQLVRFQVPFGSVEPRNTVLPQAVKDAIYSTTDPQPFTIELTIDRKLGTGTAKLMVIDQVFSLSFTLSDFLADGGPTITAVGPGIAVNSNAPGQTASVHVREFRMYTK
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