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 Ga0151620_1016360

Scaffold Ga0151620_1016360


Overview

Basic Information
Taxon OID3300011268 Open in IMG/M
Scaffold IDGa0151620_1016360 Open in IMG/M
Source Dataset NameSub-surface freshwater microbial communities from San Francisco Estuary Delta, California, USA . Combined Assembly of Gp0173482, Gp0175554, Gp0175555
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterOregon State University
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2606
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (25.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lotic → Unclassified → Freshwater → The Molecular Ecology Of Microcystis Sp. Blooms In The San Francisco Estuary Delta

Source Dataset Sampling Location
Location NameSan Francisco Estuary Delta, California, USA
CoordinatesLat. (o)37.986944Long. (o)-121.523611Alt. (m)Depth (m).2
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F007859Metagenome / Metatranscriptome343Y
F008688Metagenome / Metatranscriptome329N
F009135Metagenome / Metatranscriptome322Y
F010081Metagenome / Metatranscriptome308Y
F013524Metagenome / Metatranscriptome270Y

Sequences

Protein IDFamilyRBSSequence
Ga0151620_10163603F010081N/AMKEQIDAIIKKHCLKMQEVDKTKSIPMIVKQLDAVVYDMYRELYGLRDIRADNYYLNSFTADDKKGHCC*
Ga0151620_10163604F007859GAGMKNLLIVLLLGTGCTSGMYLRYSYNRALENLPLCSRVHAINNDYITYSMIENSTNSVYVVHTNYYRAYYNCDGKIINTIKN*
Ga0151620_10163605F008688N/AMNRFNKIMLGSLAAIMLTAMSVEPLKIKVYLITSYRGNDLTIEKVYLKKENAEKYRDMYKESHNYSVEERELTE*
Ga0151620_10163606F013524N/AMKTNKEVVNRLREFTSYNCNNLLDAKLCEDIRYLCDEVERFGREMVRVNDHMDADHITIQRYKKKLEKCQLKLSNYEPF*
Ga0151620_10163607F009135N/AMSNPRYYLKVNLPPNFNELDAEVIKKELMTYINSRNQWGALYGPKSTKKGITIEKVMYRTNED*
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