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 Ga0070744_10052768

Scaffold Ga0070744_10052768


Overview

Basic Information
Taxon OID3300006484 Open in IMG/M
Scaffold IDGa0070744_10052768 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary, USA - metaG S.535
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1191
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F007691Metagenome / Metatranscriptome346Y
F009531Metagenome / Metatranscriptome316Y
F022197Metagenome / Metatranscriptome215Y
F090399Metagenome / Metatranscriptome108Y

Sequences

Protein IDFamilyRBSSequence
Ga0070744_100527681F090399N/AMDLNTLIQYMKLHEISLMQDLEKIDYVNEHHFYRVKEAEIYNTRHLLSVAEGM
Ga0070744_100527684F007691AGGAGMNTIDDLINEIYESNYSHLEFEENMGGEDCDCHIHITLNTMAKYAGIEVG*
Ga0070744_100527685F022197AGGAMTLETDQIENPEMYADYYSCDLAISITNIKAKNAHHAEAVMQTFIDEIAKIMDDELSWDDAQWDIEENVFIPELGEWHKK*
Ga0070744_100527686F009531N/AMTKQVAIYEMNYSVSPGGIDCWEATIQGYGESTTASDFKTAGEALNWVLDRYPAEMLELVVTSHQAYEKEYV*
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