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 Ga0105237_10000679

Scaffold Ga0105237_10000679


Overview

Basic Information
Taxon OID3300009545 Open in IMG/M
Scaffold IDGa0105237_10000679 Open in IMG/M
Source Dataset NameCorn rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS C2-4 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)47055
Total Scaffold Genes49 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)39 (79.59%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Corn Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameMichigan, USA
CoordinatesLat. (o)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F026424Metagenome / Metatranscriptome198N
F035981Metagenome / Metatranscriptome171N
F078336Metagenome116Y
F084521Metagenome112Y

Sequences

Protein IDFamilyRBSSequence
Ga0105237_1000067921F084521GGAGMIGEQIYSVEVAIVRCPGDGEDGGPLGVPVEKPTTVRYCDVCRRWGAVGSTHMCWRNWRVRLSDLLMNLTRDGRR*
Ga0105237_1000067929F026424AGGAMMNLSLEKMKKFSSEIHALKTKHEKAIQKTNDVIEQGVDATLASATAFGLGIWQTRSDHQKLLGVPIDLAVGLAAHAAGFMGMGGKAAPYLHSVANGALAAHFHTVGRGVGKEMREKAGLAPVAMSGEGPAEGGSNLSDDALLEMARRRG*
Ga0105237_1000067930F035981AGAAGGMRYDESSGDEILGADEILGADEILGADEVLAGGGEESAGDESSGEESAGDESSGDELVGLRLFRRKKRKGTRKVASPIVQSRLAQQGVIVKTQGYSKGRSQSLGFEFLAVQPGGTVDVPANPQVLFKPKRLVYTGPVNTFVIQDVKIGRSSQFVASGPQSADAYPPTSTVDNMELDTARPGVVITLRIQNVSGVAADFRATMFGQVAE*
Ga0105237_1000067937F078336GGAGGMKSFYESGMSEVGGRLFSVLSPSAIKQEIDSVDLYIRRIDGDVQAHKAKVADLLRDWHLFVEEWTTFRDGAGWFARTTGATYDKALDFRKRADAWDELVHRRGASTAPVGTTPAPAPQGDLVGSLVKLAGIGLAAYVGVSLIQLYKQREARHDDRPGT*

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