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 Ga0065704_10004253

Scaffold Ga0065704_10004253


Overview

Basic Information
Taxon OID3300005289 Open in IMG/M
Scaffold IDGa0065704_10004253 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere bacterial communities from Rose Lake, Michigan, USA - RL2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusDraft

Scaffold Components
Scaffold Length (bps)4850
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Unclassified → Unclassified → Switchgrass Rhizosphere → Switchgrass Rhizosphere Microbial Communities From Michigan, Usa

Source Dataset Sampling Location
Location NameEast Lansing, MI
CoordinatesLat. (o)42.794771Long. (o)-84.393804Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000719Metagenome923Y
F004395Metagenome440Y

Sequences

Protein IDFamilyRBSSequence
Ga0065704_100042535F000719GAGGMKTIATKIFIAVFVMCLASAPVVHGKGDDFNSVVKMIEEFYNVKHVGIPFLAKAGMKVATTAARIKGGTARRLAEAGSIKLAVFEDQKFNGDFAKFRSSLNQALHATWMPLIQTLSAAGEEQTYIFLRDAGDKTNVLVVTIDERDATVVQVTLSQKNLALLLKDPEGTGKAITEEATLIDQE*
Ga0065704_100042536F004395AGGAGMHRILFLLIVLAALASFPVRAQEVEDTIKIKTRVVFLDALVKDKKTNLPISELTTANFEVLDNGKTRNITYFSREGQARKPLALILILDLREDGAGRFMKRPEILKSMEDELAKLPPGDEVAIMAMDTNENEERFWLTEFTNDRTKLAAALARVPALSVSHEGQLPEGAVQVKEKPADTAATTAEGKPDDIIETETIRGKNGATIIRKTHRDGSVNVTRTNKDGKMTIELGDVYDMAAAVKDATRKAAETRPNSQVSVVWVSDGIAPIFFEDRDATEQILIRDNVIFNSLTVDMRTLFKFLVPMAKPLTSWMGLSLYGSAKYLAQRSGGEAVKVARVKDYGAGLSRIIGNLTARYSLGFALAEDEVDDGRMHNLEVRVKAQDEKGKTRKLQVSARQGYYMSSTVPKEAAANAQ*
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