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 Ga0208546_1000029

Scaffold Ga0208546_1000029


Overview

Basic Information
Taxon OID3300025585 Open in IMG/M
Scaffold IDGa0208546_1000029 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_Sum_0.19_D_<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)77651
Total Scaffold Genes138 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)73 (52.90%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F002215Metagenome / Metatranscriptome582Y
F009058Metagenome / Metatranscriptome323Y
F022402Metagenome / Metatranscriptome214Y
F024297Metagenome206Y
F060837Metagenome / Metatranscriptome132Y

Sequences

Protein IDFamilyRBSSequence
Ga0208546_1000029102F002215N/AVTPELIVAVLSGSAGAFAGLSRALTNFNRKLERRFEAIEKDLDNFQDRVIHDYVLKEDFLREMQAVHTKLDRILDHILNHPRG
Ga0208546_1000029121F060837GAGMASKKASARDRADEFLAAIGTAGGPIGAPGLVSFGAGDMIRQLQSGNMDEYSAIRALNGGPTVGNPNAPQPRMPQDLDSAYLKLNLPGSPLPRNGLLSPQFQKAAESIQNQLINQEQYAMLPMMPPTGQLPMGIQPPMPQKKGRN
Ga0208546_100002964F009058GGAGMTYKELPKFNPEDPQIYARIDDDGVCRLTCSAEYPDFVAWLAEGNEPLPADEPEVTP
Ga0208546_100002968F024297AGTAGGMEVIQTYPNGTTIELGVDSHGNQVHRVCTAGGSMCRYVEPIHCAMVYAQQFEEPYAIKPESE
Ga0208546_100002995F022402N/AMTNWLWRSIVGCSTAILVVSVLQWGSCRFYVLPTVWPWYAKYVGTDQSEKIDPAPMGCVDVDSRTITVMMGVLTTLISLSRNAE
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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