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 Ga0070697_100048864

Scaffold Ga0070697_100048864


Overview

Basic Information
Taxon OID3300005536 Open in IMG/M
Scaffold IDGa0070697_100048864 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K1-50-1 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3431
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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?
F002368Metagenome / Metatranscriptome566Y
F034123Metagenome175N
F035684Metagenome171N

Sequences

Protein IDFamilyRBSSequence
Ga0070697_1000488642F034123N/AMKGIFDLGGKNVLRLGLLVFSTLLIVGGSVFFYDRLVYERALSVGGVITGSGSTTQTGLNPAPGTILILAVSAVLISLSVFGFLREMFRGRRSRKTLAKESSPTVSVPLPLEIGPPLQVPSILRDWEEAPKKEEGKN*
Ga0070697_1000488643F035684AGGMGLLPEFLTMLGIEIFAAMSLVSVLLDRDIPSSAQWLFQGAAGLGLGQLVVTEGFGTSSVIDASRFWISIFYLTLSVCSVAGLNVYLAAVRRKTAVASVFSGTITTPTVSVSVLFVSSYLSGVDVSLTPLTIVTLIVPALLVGLCAYGILQKTFKRVGKSAGLELSPASVSAPVETPKTYESLDLKDILGGWEESQTKKDPVV*
Ga0070697_1000488644F002368AGGMAIELTPTKIKGSKYLLIPKDLARLLEIEDKSVLNLTIEESSKGRKLVYSLNERVPPHVEN*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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