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 Ga0335036_0003983

Scaffold Ga0335036_0003983


Overview

Basic Information
Taxon OID3300034106 Open in IMG/M
Scaffold IDGa0335036_0003983 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME23Aug2013-rr0131
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)12617
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (44.44%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota, Crystal Bog Lake, And Trout Bog Lake In Wisconsin, United States

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.0995Long. (o)-89.4045Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004664Metagenome / Metatranscriptome428N
F017632Metagenome / Metatranscriptome239N

Sequences

Protein IDFamilyRBSSequence
Ga0335036_0003983_12243_12617F017632AGGMSERAPRRYTDGSVTFDGGIDSGVMPSEVDKNQVAFAVNANFREGFISPRPGFIQKDYDLCVTITADNAEVTADQTNVTADGWSEECYGPQGLTGTFQCALPYISDDGRTFILLLISGKVWLYNC
Ga0335036_0003983_8680_9300F004664GGAMSGYKILNEHNVIPGGWNYRVPETGIEIPAGSLPQLREFVRNHYAANAVKVPANLDILITEYQCRNGADCSYDEVEIPRPKGLKSLQIGDVIRFSMSLIHGLTVGGGKVDQAEAIRRASICAGCQFNRKPLGCTGCNARVLKEAVRTLSQHGTTPLDDQLQSCEFCGCFIRSMVWFPIETLHKFTDATENANLPAHCWKKRPCTET
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