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 Ga0129333_10004110

Scaffold Ga0129333_10004110


Overview

Basic Information
Taxon OID3300010354 Open in IMG/M
Scaffold IDGa0129333_10004110 Open in IMG/M
Source Dataset NameFreshwater to marine salinity gradient microbial communities from Chesapeake Bay, USA - CPBay_Sum_0.6_0.8_DNA
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)13619
Total Scaffold Genes43 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (39.53%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Coastal → Unclassified → Freshwater To Marine Saline Gradient → 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: Chesapeake Bay
CoordinatesLat. (o)39.2637Long. (o)-76.0017Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000744Metagenome / Metatranscriptome909Y
F002243Metagenome / Metatranscriptome578Y
F005478Metagenome / Metatranscriptome399Y
F029368Metagenome / Metatranscriptome188Y
F104550Metagenome / Metatranscriptome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0129333_100041101F000744N/AVQLNVHEIGVILSALQLLGLREENQIAREYGSVPALYNKLYTIYEQMDTSQTGLRNDVVPSF*
Ga0129333_1000411014F005478N/AMYDDYDLDYSFANDYNLDEDSYYEYGTSDLEEDYARDGQDYQDLAYRHYA*
Ga0129333_1000411018F104550N/AMELTKSFPPADALIETFQQVDYQKLYQDSKSFVITVAAFVAAVSTILWEKIQVMKFRTPDFLSDYVYFSVNLIGEPGDEIVGFSVGNRYVGLYDNGIAWGVLNAQGALDNQ*
Ga0129333_100041102F002243GGAMPDFPTLQSQDGTMQVTFYPVKTPYGDISQEWCLQVLSWKGIDQISKKFLNRVEKSLAIRDRLAHDYVVTGDNTNLPQLGNPFYGAC*
Ga0129333_1000411030F029368N/AMRYNPATDRAISIDEIAAQCRAAILKADERRYVDQVADRIYDEILTFYRWEDDVLIAA*
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