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 Ga0208424_1000076

Scaffold Ga0208424_1000076


Overview

Basic Information
Taxon OID3300025445 Open in IMG/M
Scaffold IDGa0208424_1000076 Open in IMG/M
Source Dataset NameAqueous microbial communities from the Delaware River and Bay under freshwater to marine salinity gradient to study organic matter cycling in a time-series - DEBay_Fall_0.3_>0.8_DNA (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)12707
Total Scaffold Genes29 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)27 (93.10%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Coastal → Unclassified → Aqueous → Aqueous Microbial Communities From The Delaware River/Bay And Chesapeake Bay Under Freshwater To Marine Salinity Gradient To Study Organic Matter Cycling In A Time-Series

Source Dataset Sampling Location
Location NameUSA: Delaware Bay
CoordinatesLat. (o)39.283Long. (o)-75.3633Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001515Metagenome / Metatranscriptome679Y
F002827Metagenome / Metatranscriptome527Y
F005146Metagenome / Metatranscriptome410Y
F016263Metagenome / Metatranscriptome248Y
F088554Metagenome109Y

Sequences

Protein IDFamilyRBSSequence
Ga0208424_100007611F005146GGAGGMKLVNFYEVMDRRGDIAWGGASVTEAVEWFRRGLDNSIFVSVWNEEDIEEPVLVTDKIEITALVLATITSERARA
Ga0208424_100007614F001515GAGMTTKSSFDLDFSYGRKGEQLVEDLLTEGKRIEVKRDRKWHLTNNVYIEVECFFTKDNKWAPSGLAVTEAEYWAFVLKKTVLMLPTTVLWYAVKTFGKDITCQIPPNLSRGYLVKVVDLIEATKQLPMEEA
Ga0208424_100007616F088554GAGGMTEKYSWYKSALRRKKIAEAKKLKAARYVEEMNKRANEQQPTTPRVL
Ga0208424_10000767F016263AGGCGGMPRCGSCGWQFSERTLTKHAETPCGEESEKAGAMPYVPEVDDLVRMIEEEAGEDV
Ga0208424_10000769F002827AGGAGGMNKEYYQAKADLCRDLAIKQMVEGEHGEAGKNLLRMVNALNELNLINYKEEKDNAGL
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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