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_10009060

Scaffold Ga0207646_10009060


Overview

Basic Information
Taxon OID3300025922 Open in IMG/M
Scaffold IDGa0207646_10009060 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)9884
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (45.45%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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?
F008873Metagenome / Metatranscriptome326Y
F011479Metagenome / Metatranscriptome290Y
F017116Metagenome242Y
F020766Metagenome / Metatranscriptome222Y
F069900Metagenome123N

Sequences

Protein IDFamilyRBSSequence
Ga0207646_1000906011F008873N/AMTEKKMEDEKKPTLSPFADPQLFLTVEQANHRLKEIMKATDPTTRLYKSIQRITEVNEMMLRRQDQLRKLFEPSENVRKYLERIRQQVEQLTQTKLTELPLVSRTLIPQLEIEVSSYVEAFERALTEKEKE
Ga0207646_100090602F069900N/AMTSFTGVFLLVFSVLVVVLDTANFFAIGISFFIMLIGIMLVMVGAMAGFEKKPEAAPTHTEVFREIVKVRCKYCNALNFETSQNCSNCGAHL
Ga0207646_100090606F020766AGTAGGMVDLVTGGIVLFAIMVAAGIIPLILAFRVKVRSLRILSLLLGLFAVIHGFYHLASGYEQEFLADAVFEPISLLILVGLGAYYSKLGTV
Ga0207646_100090607F017116GGAMAYDIVGVFETFNLVLILVAFAIFTRLAFKGKSLGNFRFQLSIFLLIWVLSEIPHIAGSLGLISTAAYSDIGLYLHAASMGVFAFFVGWRSIKIATLHPNPPTGALAVPKEPPRGIKG
Ga0207646_100090608F011479AGGVTSFDELVSQSVTETMSKILGTDTWKAINFFFDMKIIAREPEQFAALLDKVFGYTSIVLQKKIGETLLGKVGAPQQTSSNFDFRQMLRFAKAKFPRQALPDQLGP
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