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 Ga0222717_10004213

Scaffold Ga0222717_10004213


Overview

Basic Information
Taxon OID3300021957 Open in IMG/M
Scaffold IDGa0222717_10004213 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_18D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10655
Total Scaffold Genes19 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (78.95%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Associated Families6

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)37.0966Long. (o)-122.4216Alt. (m)Depth (m)38
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002593Metagenome / Metatranscriptome545Y
F002682Metagenome / Metatranscriptome537Y
F018089Metagenome237Y
F037471Metagenome / Metatranscriptome168Y
F046689Metagenome / Metatranscriptome151N
F099884Metagenome103N

Sequences

Protein IDFamilyRBSSequence
Ga0222717_1000421311F099884GGAMMASTKITLTLWRCKLEILIDKISETRQERLLNPQMSDHYRTWFQGKYGMKLYDIKVGRKWVFIRSKSHRARLPLAKFKTQAFVQWHCDARTHASSETYAETGRYKKSRGWWKNYGFETNPADVNYDRGHLIWK
Ga0222717_1000421314F046689GAGGMKQGHLINKINKLIPVAKATPMSEFYDDDSTGIWIRGSEYSYKGSLSYDRLLFEYYLEDEAVHPDLAKIIEDANWMWEPYDAGTLMLYPN
Ga0222717_1000421315F002593GGAGMSKLIYSRNGSETTESITNAQPQIQAIWNQAHRFGANIVRVRAEKLRYGNSTGKTFNSFHEGYVSVYKQKDKIHESDALYFARKIPLTKVNKGMQILEIASNVDVQDTLDTIDTIQYYSETSFLGRLYNRIVYGTPMSINS
Ga0222717_1000421316F037471GGAGMAQMRVKDQDLVVEQVVEKIEATELNKFKARKDVQAVQSDIEARIEVISRLFEQYKKLEENIKAEQQELKDLVQGFQKANGFEYSSYATKQGIWLDNISTYGVSIPELKLVWQLPYTKKHEISTKLRLQTMGGDFDVYKLIEELTAEFSS
Ga0222717_100042133F002682N/AMGKQIGSDNKPVSFRNHVYKKSDSKGANPRPGFYTQDYRDNWDKIFGKKKKAK
Ga0222717_100042139F018089N/AMSSSTNLVPWDYGEKNMSNQTTFEVKNPKATATYGQIQRIAMHFSKAKNCPKDIKFGTVRGHFLAKLNDTKSPLTQGQVSKILSLKSLPKADLTAMRAYKKLVSLG
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