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 Ga0105085_1001345

Scaffold Ga0105085_1001345


Overview

Basic Information
Taxon OID3300009820 Open in IMG/M
Scaffold IDGa0105085_1001345 Open in IMG/M
Source Dataset NameGroundwater microbial communities from the Columbia River, Washington, USA - GW-RW S3_50_60
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3622
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Archaea(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Sand → Unclassified → Groundwater Sand → Groundwater Microbial Communities From The Columbia River, Washington, Usa

Source Dataset Sampling Location
Location NameUSA: Columbia River, Washington
CoordinatesLat. (o)46.372Long. (o)-119.272Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F091757Metagenome / Metatranscriptome107Y
F104901Metagenome100N

Sequences

Protein IDFamilyRBSSequence
Ga0105085_10013451F091757AGTAGGMPPAESDRGATDGDIVEFDHWIYGVVSGVGYTTKAVSHGLDAGLYDPYLRGHYTPIRAAAAQTAEDEVDLHMIHPLRTGRELLLSRISRGIPDEAGRPTFTNHTVIARTDVLRSGQITLEAVYRSMKEFDRESADVRAEVPL
Ga0105085_10013453F104901N/AVKFGSDKADGFRFHAAFESLDEISGVFQRLMSGSFPDAATKEGVREIAFRLSYRRTGLGILSRRRLRGSSPDASAPFQLILLKSFEADMARSRDEGSVAHGTLSSALTSDAIVIMVDATSLAVADEEGELAPLGKYDEAVEALLMAIKRSRDQAEGKLLYPIFVFSKFDRVDPEVLRRANLNAAPPDVSKKGPHAEYAKRLVDRSMPKTVAIIQSGGRRGLRFATPSYFFSWVRSDEPVPGRDQRIRLRRSGAIGWEPDYPSDEYLAFLECLGRIAADTTA*
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