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 Ga0207646_10009786

Scaffold Ga0207646_10009786


Overview

Basic Information
Taxon OID3300025922 Open in IMG/M
Scaffold IDGa0207646_10009786 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)9444
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (78.57%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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

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?
F006466Metagenome372Y
F010312Metagenome305N
F013280Metagenome / Metatranscriptome272Y
F075877Metagenome118N

Sequences

Protein IDFamilyRBSSequence
Ga0207646_1000978611F075877AGGTGGLKGQLVFRLGIGNGDGFDVLDSKEEERVLHRIENRGSFNTLDLAIQLHYSMNDGRQHRVHEDHYILRLVFQPGRVEVLVHHLKGVRRVEPDELIRLIIQELNVELARDRYGQVELDAVDI
Ga0207646_1000978613F010312GGCGGMASPKKELMMLRVFRLTLPAALLVSLTWMTLFTDAARQAVINSLGANANIIIFILGLFLVVGLYWVMGVYERKILYENHRRPAF
Ga0207646_100097865F006466GAGLLLLIWGKVARDLYGLPGPDSALLLLQFMLVIFLMEASTTTLTFDYSIKQLEGKDDDLSAMARMRVTEWERVQLLNLGKLTIASFGLTLGLLILGSLVSVSVNHIAFSGILVLAAFVAIFILLIYRREPEERRRPVD
Ga0207646_100097868F013280N/ALNTIKLLFWSGIAYALLLVLVRGVFPSESAPTISLTGIPLIVIVVMIARDLARKSTSPTIGRTMAKTTGFRGSPVEFLSGQFRVATDASNSYFENVVRGKLRELLTVKVALETGQDNETVRRILSDPREGPLLLEDDSLFSTLYGPTPQNGLARINLISDAIDLIGAWKG
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