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 Ga0207684_10002154

Scaffold Ga0207684_10002154


Overview

Basic Information
Taxon OID3300025910 Open in IMG/M
Scaffold IDGa0207684_10002154 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)20188
Total Scaffold Genes22 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (77.27%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

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)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000871Metagenome / Metatranscriptome851Y
F003589Metagenome478Y

Sequences

Protein IDFamilyRBSSequence
Ga0207684_1000215415F000871AGAAGGMRWPCFLLLASLPPASAATAQTSGPPSSPKSLKFDVAQIPATRDSFVFRLRGEERGWAVWQYEIRSLETTQEVVYTAASEFRPVEEERLRVVVNRQTGQPISTFHQINLFSPQSDTVMVEHDLEVKRGEISGRRRVGTRSGGVRIVPVSRPFAPGTVLSDYGLFAGAVSNAVPGDSLTVPAYKEFDDSLVVLTFVAESPTTIDVPAGRFDVLPLRSGGFRIYATRSGPRRVVKGETLNGGFSFELVQSGPVIPTPE
Ga0207684_100021543F003589AGGAGMNDDATLHDDKLQEVARRLGARAAERLDVERTAQAVVERLRTEPRAEVRVLGWIQPAWLRIAAVLLLVIGGSVVALNVRGPQRTTSQPPASAGGELSELSGDELRVVLAALEEPGAERQGVSPQDVGLEDLSAPQLRALLESLEG
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