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 Ga0222718_10026630

Scaffold Ga0222718_10026630


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10026630 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_27D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3925
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (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 → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Chitinophagia → Chitinophagales → Chitinophagaceae → Hydrotalea → unclassified Hydrotalea → Hydrotalea sp. AMD(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)37.6183Long. (o)-122.2916Alt. (m)Depth (m)12
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
Ga0222718_100266301F071638AGGAGMSKNIETKKFNSNEKALRYINKLGFSLKDRHCFKEDRSFLYTKKFSKQQVYLRSTYDFLNDNTIEMGTVWTVQVF
Ga0222718_100266303F002593GGAGMSKLIYSKNGSATTESIRNASPMIQAIWNQAHGFGANIVRVRAEKNRFGADTGRTFNSFHHEKVSVYKQKDEVHESNALYFAQKIPVTKSNKGMQILEVASNLDVQDTLDIIDEIQYYAETSFLGRLWNRIRYGTPMSINS
Ga0222718_100266304F037471GGAGMTQMRVKDQDLIIEQVVEKIEATELEKLKARDDVQSIQGVIETRIEHISGLLNQYKELEETIKADQKELEALVKSFQEANGFETGLYYDKQGIELQVAHYGVGVPEYKIVWNLPNSTKRELSTKLRLQTMGGDFDVYKLIEELTTEFSS
Ga0222718_100266305F070149AGGAGMQTIYHIVAEVCARDFPILAKLSVNQGHKFVDIIYEDIVSGDNPTEITEQQIFEYVEEFIAKAISVSIDDVVDVMEKPNDSQNMS
Ga0222718_100266308F102114AGGAGMDYKVIITVDICDCEDKQEAINFVADNIGLSEFNLTIDVEEN
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Institute for Fundamental Biomedical Research
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