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 Ga0335001_0040560

Scaffold Ga0335001_0040560


Overview

Basic Information
Taxon OID3300034064 Open in IMG/M
Scaffold IDGa0335001_0040560 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME14Nov2013-rr0054
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2714
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (81.82%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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?
F070119Metagenome123N
F071246Metagenome122N
F072347Metagenome121Y
F081267Metagenome114N

Sequences

Protein IDFamilyRBSSequence
Ga0335001_0040560_1654_1890F081267AGGAMSYEYHWVVVYDEEWGAFMVDVETTLLNLRDNSGVVYNKTTGKWEFLEEGSALEAEYYRLEEALAYNLTRLDIPKKVG
Ga0335001_0040560_268_510F071246AGGAMGKTQTEGVADKIVALLADGRISQAQWRLWIPRRITEHNKMIIANAKNFADGINEVIADEQIGISKELIFDYQTGHQHGQ
Ga0335001_0040560_27_278F072347AGGAMDNRTKAEILVQFTQDYFNSGEYEEFFDYNDLGIPLSIAITQDMVILTNEGEQLLEETWKELCLLFEANPDDEYESIDDLIVE
Ga0335001_0040560_813_1025F070119GGAGGMNLNSYSAFDFILPNCLEPGDIIQWEEEIYTVKSFDLLSDGFIIYAIDEMEDDIELLIPDNTILSLMEEQ
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