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 Ga0208004_1003601

Scaffold Ga0208004_1003601


Overview

Basic Information
Taxon OID3300025630 Open in IMG/M
Scaffold IDGa0208004_1003601 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_15_>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)5670
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (23.08%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

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?
F038601Metagenome / Metatranscriptome165Y
F047030Metagenome / Metatranscriptome150N
F101081Metagenome102N

Sequences

Protein IDFamilyRBSSequence
Ga0208004_10036012F038601N/AMKLYSPDAKGKYVWQVADSKTRQVSFSVTTTRTAPPDACYGHPIGKYDEQGVFMTFCPNVGADDPKSPLAARYVLHPLAPAERDKADRERMWREI
Ga0208004_10036016F101081GAGMQPTPVDDRIEAILGKYDLWEPDQYRNAVSELAVYLLTLTEEEIEGSLYHKRLKDKVHLENCFMRSDD
Ga0208004_10036019F047030AGGMDIIEEISASMPPKRLYQTYCRMAADRGYPKRTEAAFRCKLEHMGIPLMPELDFYKFPQLAELFKTTRHTAYSLRKHGLKAEKESDHANQPWFVSRAELKRLARKKPGVFRDFDPEGLFVVLEDRALVDLILAQPKVHKAHRYNPTPCRCVETGQEFLGYRDAGRFAFVDPSAIYNSCKYGHRAGGYHWVALR
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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