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_10133251

Scaffold Ga0207646_10133251


Overview

Basic Information
Taxon OID3300025922 Open in IMG/M
Scaffold IDGa0207646_10133251 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)2237
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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?
F001571Metagenome / Metatranscriptome669Y
F011479Metagenome / Metatranscriptome290Y
F017116Metagenome242Y

Sequences

Protein IDFamilyRBSSequence
Ga0207646_101332512F011479AGGMSAVSFDDLVSQSVSETMSKILGVTTWKSVNFFFDTKTAAREPEAFAALLDKVFGFTSKVLQKKIAETLLNKVGAVQPSNTLDFRQILRLAKAKFPRTTLPGQIG
Ga0207646_101332513F017116GGALASDPTIALFETLDLVLILIAFAIFARLALKGKSLGSFRFQLSIFLLIWVISEIPHIAESVGFLAATGYEDTGLYIHAASMAVFAIFVGWRSLRFLSFHPPASITTVSLPTETPKVLKS
Ga0207646_101332515F001571GAGMSGPAPDKRLALIHRIIVPDKEYPKEYAILVTDSQSIFIRQKKTRSSYWLRGEMRFGTALVTDVIPKTLEDYEETSLESLTADPTNITVPHEAVVSLVMGKEEPEFRAREFFVWLTMRRQGHRFQVYNFEMRYRQSPNAESLIKFYMVPLGAYFKPERQTKSREAILR
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