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 Ga0207665_10005019

Scaffold Ga0207665_10005019


Overview

Basic Information
Taxon OID3300025939 Open in IMG/M
Scaffold IDGa0207665_10005019 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L11-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8833
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (55.56%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
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)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009644Metagenome / Metatranscriptome315Y
F034381Metagenome / Metatranscriptome175Y

Sequences

Protein IDFamilyRBSSequence
Ga0207665_100050191F034381N/AMSANVGSSPCLGVTRAIAALLALHSPVALASQQPLSAASTPRASQSSFEPRASERYEPVFEGLRSMKQVERVAPVRNLTLRRDVIAFHLEDGNLFLATPVAGRTIGAVFVGRGSISVTPPLAMERVELKRLLDDSTVNSPISAVAFVFTDSTLAEVERQLTFGEQPTASQGGGVLHDAIDHLVDGRQVVQPTLMKALLNGDTDGFFYAHVKREHGEDLMFMVDPEDEEPVALLRGGREGQKVQVVSEFRRTEDLNDTTAAEPGRRDALKVDAYRIEATIAKGLGFSAAATVRLTARRAVRWARFNLLSELDVDSLREAGGRTMTFFRPNKTSELWVRFDPAALPGDTLALRVAYHGDLIGYTSIVQDVTRMWPGRIKMRIPLTPDQWLYVKTSYSWFP
Ga0207665_100050199F009644N/ATTRPDFRPDPRALVVTLDARPERITAALDSLVPAESLEVAHANVRDGYVETAWYDTQAHRTRHHEREITNRAATVKIRFWADPWVPGQTRLTVEPVYRPRYDPSRPQRDLEVIASQEHEGYKIAQRFVDKLKERFGVPKAAR
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