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 Ga0068859_100000128

Scaffold Ga0068859_100000128


Overview

Basic Information
Taxon OID3300005617 Open in IMG/M
Scaffold IDGa0068859_100000128 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S2-2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)72119
Total Scaffold Genes59 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)38 (64.41%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → Unclassified → 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?
F013685Metagenome269Y
F065097Metagenome128N
F068110Metagenome125Y

Sequences

Protein IDFamilyRBSSequence
Ga0068859_10000012826F065097AGGAMPNNPNTDHDNGNASLDAEDWEIALKPYAGYPDAALDLARNLMTIRECLTTTPPDVPTAVAALNEAADSLFTLTSFHKGAHDLYRTYIEGRATRAHEALMQSLGVKF*
Ga0068859_10000012827F068110GGGGGMDTTDKNTVLEPRAAMMARLLQIHDDAAGEGTDEGAMIVTFEGYISGMPEFFTNDCNEAFRFENREQAESFVAEFAGALLTPQVLDHP*
Ga0068859_10000012850F013685AGGMKKLFQCLVLGVLVGDLLSPATVQAQFTVFDPAQYSLQIERQIEEANRWLERVKQYSEEINKLAQQLSTMKGILGEAEKLVLHNNNLTRTMAQIGQTVRDVFALKRAIESMVVTRLSMIKSIKTRLMSGVFDPEADLRDFEDYLRNSIGRQEQDKIATMNRIAMFDATLARLYHDLQTARARQAATAAQMKAAKDKLDVELAKPQSEQCANCISDLKVEIASCEKMIVDLDTQITNLSTQIEDRVKRYNLTMEERVRIANRVKATDEAWSSLNIVKDSIFDAIQKGGMPSPSPQQ*
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