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 Ga0207658_10269890

Scaffold Ga0207658_10269890


Overview

Basic Information
Taxon OID3300025986 Open in IMG/M
Scaffold IDGa0207658_10269890 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S3-3 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1454
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Switchgrass 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)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F010286Metagenome / Metatranscriptome306Y
F010963Metagenome / Metatranscriptome297Y

Sequences

Protein IDFamilyRBSSequence
Ga0207658_102698902F010963GAGGMTGTEETLTEGGIPIRSQLARFRVSGTGRGRGIVFLYPDKLAAVNSSAQLWGIFLGPIVLISLSHLLFHDIRELGSAVGVLAGGWIGQGIGKRLAATRVAANRDGVRLVPLDLITSVQFSGPAGIRGWLTGQVLLVTTADGAEYEFRGMMDGWQAAIAGALTVRGREVHAVRDVITVMPQVTGGEG
Ga0207658_102698903F010286AGGAGMTDRNIPSRGQTATFSVNGVKRGDGMLLLYPDELTVVNTRSIGTWVYVLVPAIYLAVHFYLFHTIGWGLVAIWYAAGWWVWQGMGRRLAARKVAAGGDGVTVIPLDQVTSVECRKARKGANWLGIRKMTVTTADGTEYKFDGLMEQWHDHLAQALAAHG
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