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 Ga0207662_10007026

Scaffold Ga0207662_10007026


Overview

Basic Information
Taxon OID3300025918 Open in IMG/M
Scaffold IDGa0207662_10007026 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S3-3L metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6113
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (37.50%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Switchgrass 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?
F002548Metagenome / Metatranscriptome549Y
F092677Metagenome107Y

Sequences

Protein IDFamilyRBSSequence
Ga0207662_100070262F092677N/AMRVYLPLAVLLALLGGAGCGAGEQPDHQAEWRDVLRHKQAAVAPDATSHHKQVYADSVRAFVVKHPNHGRAREVWQRLQLEFADDLAGAGRYQDAIRFYRAVLEHDPADERARRGLALSADRLAVTREKLLTLAKGMTQRQVAGILGKPIPGWTVRNDRLGSTFEAWYYRTRAGAVAGVYFRDGKVFAAEESSSSRLGRLSS
Ga0207662_100070265F002548N/AMPKFEYESQTEPSSAFFERRRLRRVRMIVELTLNLISSDRTVSHREARCLVDCARKAIMELFPGFGTRYDRIVQPHFDRVLQQRWPEEELHYSNPYETVN
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