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_10000228

Scaffold Ga0207684_10000228


Overview

Basic Information
Taxon OID3300025910 Open in IMG/M
Scaffold IDGa0207684_10000228 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)86168
Total Scaffold Genes91 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)58 (63.74%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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?
F021259Metagenome / Metatranscriptome219Y
F023285Metagenome210Y
F026234Metagenome198Y
F039971Metagenome162Y
F072170Metagenome / Metatranscriptome121N

Sequences

Protein IDFamilyRBSSequence
Ga0207684_1000022822F072170N/ALKSSTASVTVKLHGGPFNGQSAVAYGAIVGKLIEVNHKSYRITKIEPVPGWRELVAQADFEDKPKVAVVAKTVSSIPK
Ga0207684_1000022874F026234N/AVADGSDSTLSGQTSDGVAPVLVSTIVCAYTQAELPTPWLAIFHRFERTMQRAGLRIRVRLFPLEELPETFEVLVVPPELQAAAQTLHTGARIIVTSRAEAPAAADLLLREIERGETLYAEKVRPGEPRIMTHRGGDIL
Ga0207684_1000022875F023285GGCGGVSQDLLARLRRVEQQIRAFKQLHESELQLILDELTDIARQVDEQNAAAAPPAAPADQADPAASSPKRAKWLAEQEKKAAPKSRRELLFGEREEK
Ga0207684_1000022878F021259GGGGGVRRLVALLGLVWSLANLVVAYFFVTGAFVAKTAAKEGVLAQVSLLLGGVLIAGFAILLARECLRMLTSASETA
Ga0207684_1000022879F039971GGAGMRIVAWFLVAVGLVLAGIGVASALGQAGSGAQPWGNELSDNFVFIKALPFVLGFGVAVGLLMANTYGAKVRSDGAVRRWSPGTVFGHWVLTLGFVLALPTGMWQYLGGILDVNLPIPLYLFYRVHYIGAAIVLFAVVAFVSYLWMTGDRSLLIGRGEWGRHLLGLAYELPPSLRGRYAKLLRIDLGQPRPPMGKFTFYEKVVELPSWSILLALITVTGLIKAGRYLIPVPGFVLWLASTLHVAAMVAIVIKLLDHLRYTFPRWSLMSAITTTWMEEPTAADRHGASERSGSSAAGIAGGGDT
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