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 Ga0208784_1000288

Scaffold Ga0208784_1000288


Overview

Basic Information
Taxon OID3300025732 Open in IMG/M
Scaffold IDGa0208784_1000288 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_N_>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)25643
Total Scaffold Genes42 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (30.95%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (16.67%)
Associated Families6

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?
F005089Metagenome / Metatranscriptome412Y
F026746Metagenome / Metatranscriptome197Y
F029725Metagenome / Metatranscriptome187Y
F049578Metagenome / Metatranscriptome146Y
F057764Metagenome / Metatranscriptome136Y
F101032Metagenome / Metatranscriptome102Y

Sequences

Protein IDFamilyRBSSequence
Ga0208784_100028810F057764N/AMRRSKTPYWNFWKVVFAGWLIRYPEKILKIFGVPLGILIVMIYNAMTK
Ga0208784_100028814F026746N/AMSKSVILSLLSKGSTGNEILSILDVIVADIEQENIDSCAEVFAN
Ga0208784_100028816F049578N/AMRPLKYKNLGYGVMIRVPESVTAILPQLQDVMQQLEENGEDSREVILQMLSDIEERLSN
Ga0208784_100028820F005089GAGGMENYQQRNGVVDYRLDGICNHYFPLYVDGNPSYKNGEVCLTCKVSKTVKGQFRYTFQVNGKRIAEKRIPSEFLSLGAFR
Ga0208784_100028826F029725N/AVISLPNPMAQTKNKLVELEEFLYESCRQDPDLLATIISEYILSLNSSQLTELEDFLVNNFADE
Ga0208784_100028834F101032N/AMSNFLCITFGPSDDVARNGWFNRKQRFDDVNDAKQCGRRQLSQPGTFGYVVIEEGEDWWEVVDELGAPANAVSITCNRLGTFKVEPASELSLV
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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