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 Ga0193705_1003725

Scaffold Ga0193705_1003725


Overview

Basic Information
Taxon OID3300019869 Open in IMG/M
Scaffold IDGa0193705_1003725 Open in IMG/M
Source Dataset NameSoil microbial communities from a riparian zone of the East river system, Colorado, United States ? U3m2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3348
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil And Sediment Microbial Communities From The East River, Co, Usa

Source Dataset Sampling Location
Location NameUSA: East River, Colorado
CoordinatesLat. (o)38.9203Long. (o)-106.9495Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002984Metagenome / Metatranscriptome515Y
F015316Metagenome / Metatranscriptome255Y
F045028Metagenome / Metatranscriptome153Y
F100870Metagenome / Metatranscriptome102Y

Sequences

Protein IDFamilyRBSSequence
Ga0193705_10037252F002984N/AMRTTTVARRFSLALVAGAIAAALSCADPSPVGLDVPAFDAVVKSAGAGLVPCAQTYDSVTQVIGPAGGLIAVGHHFLWVDTMALSDTVRITAVAPADSVRWVRFQPDGLQFRTNGAGRSAILYTTYKDCGVPTADTLRIAQVSDSLGILGYLETYAQVRRRSWSQGNQYVYGVLHHFSQYAVAW
Ga0193705_10037253F045028AGGAMTSNRIFVRRLIPLVLLAASCSDPSPTGADLATPGLLAGKVKTATAPSFVQCSPVAYDSVSQVIGPAGGWFVVGHNVLWVDSLALSAPVKITAVAPSDTIRLVRLHPEGLVFKTGTHGLGAVVATTLDNCKLRRNALPRIANVTDSLALVEYMESPAAVVDSMLIARFRTDSGGWTPYWAFGALHHFSNYAVAW
Ga0193705_10037254F015316AGTAGGVGDSAALADTVSITAVAPAGTVRWVRFQPDGLQFQTNGAGWSAVLATTFSDCGVPTVDTLKIAQVTDSLKVIRYLGAPDSTWIQSTRRRGVSEIQYVAGVLHHFSQYAVAW
Ga0193705_10037255F100870GGAGGMALRRALIPLALLAALTVVASCGDPSPTGVPAFQRGGRWTGLTKKGAGLVTCSQTYDSVTQVVGPAGGLIAVGHHYLWAIPLRSRTR

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