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 Ga0182009_10001709

Scaffold Ga0182009_10001709


Overview

Basic Information
Taxon OID3300021445 Open in IMG/M
Scaffold IDGa0182009_10001709 Open in IMG/M
Source Dataset NameBulk soil microbial communities from the field in Mead, Nebraska, USA - 072115-187_1 MetaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5986
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Sorghum-Associated Microbial Communities From Plants Grown In Nebraska, Usa

Source Dataset Sampling Location
Location NameUSA: Nebraska
CoordinatesLat. (o)41.1613Long. (o)-96.6752Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002319Metagenome / Metatranscriptome571Y
F046584Metagenome151Y
F062072Metagenome131Y

Sequences

Protein IDFamilyRBSSequence
Ga0182009_1000170910F046584AGGAVKTRNVIVVLTLLTCLSLSLNLQAQAGGDVSDQIKKLQQESRDAQMKNDASWAQQHLAEGFVAGNSWGDWQ
Ga0182009_100017098F062072AGGTGGMSSTPFAREQRRSTRVSLKVTIDVQGVSEPLTCEGETILVNLHGALISTTIALKIGTIVKIQVYLTGKTSQAMVCYVDPEQSLHCGMALKKPQNIWGIPLPPDDWHEEESN
Ga0182009_100017099F002319GGAGMSSQAVNLKVTVSVPIDCDFWSEDDGWKGLCKSLSFTVRGSSFEDAKKNMASELQVYIEGILREHSKGSTRRIA
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