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_10009641

Scaffold Ga0222717_10009641


Overview

Basic Information
Taxon OID3300021957 Open in IMG/M
Scaffold IDGa0222717_10009641 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)6770
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (100.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria(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
F037471Metagenome / Metatranscriptome168Y
F070149Metagenome / Metatranscriptome123N
F071638Metagenome / Metatranscriptome122Y
F102114Metagenome102N

Sequences

Protein IDFamilyRBSSequence
Ga0222717_1000964110F002593GGAGMSKLIYSRNGSATTQSIRNASPMIQAIWNQAHGFGANIVRVRAEKNRFGADTGRTFNSFHHEKVSVYKQKDQVHESNALYFAQKIPVTKANTGMQILEIASNLDVQDTLDIIDEIQYYSETSFLGRLWNRIRYGTPMSINS
Ga0222717_1000964111F037471GGAGMAQMRVKDQDLIIEQVVEKIEATELDKFKAREDVQSIQGVIETRIEHISGLVNQYKELEETIKADQKELETLVKSFQEANGFETGLYYDNQGIKLQGVSYGFGVPTYELVWNLPHSTKRELSTKLRLQTMGGDFDVYKLIEELTAEFSS
Ga0222717_1000964112F070149AGGAGMQTIYHIVAEVCARDFPILAKLSVNQGHKFVDIIYEDIVSGDNPTEITEQQIFEYVEEFIAKAISVSIDDVVDVMEKPNDLQNMS
Ga0222717_1000964114F102114AGGAGMDYKVIITVDICDCENKQEAINFVADNIGLSEFNLTIDVEEN
Ga0222717_100096417F071638AGGAGMSKDIDTKKFNSNEKALRYISKLGFSLKDRHCFKEDRSYLYTKKFSKQQVYLRSTYDFLNDNTIEMGTVWTVQQFIRS
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