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 Ga0181423_1005163

Scaffold Ga0181423_1005163


Overview

Basic Information
Taxon OID3300017781 Open in IMG/M
Scaffold IDGa0181423_1005163 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 46 SPOT_SRF_2013-08-14
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5789
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (25.00%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (16.67%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfuromonadales → Geobacteraceae → unclassified Geobacteraceae → Geobacteraceae bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Strait → Unclassified → Seawater → Marine Viral Communities From The Oligotrophic San Pedro Time Series (Spot) Site, San Pedro Channel, Ca, Usa

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)33.55Long. (o)-118.4Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006684Metagenome367Y
F009110Metagenome323N
F030097Metagenome186N
F044196Metagenome155N
F054046Metagenome140Y
F062252Metagenome / Metatranscriptome131N

Sequences

Protein IDFamilyRBSSequence
Ga0181423_100516310F062252N/AMKTSEAIQAIIQTRDFCGNEAEALRDWEAENGTLSEHQRAQVWQGVKEEWKLWQLKANVQHALTDAERLKAFSDIENA
Ga0181423_100516312F006684N/AMYKIIISYIIASALAMGLLNHSINKAQDDIETLAEVLVHHADTLEDHRGVLLQMIDDLTVPYM
Ga0181423_100516313F044196N/AMEDITDKLENAKILINQMIGSHQGTPEAATGYAIDQLGLPPDVASSLIQYANQVNKR
Ga0181423_100516314F030097N/AMKALDTAGTQSKISSCMGFMASGAARDAYRRLLTASTVGESKGEQRKSPFSRTTKEGVKK
Ga0181423_100516315F009110AGGAMITSAVRYMESIKDKVPPAGEDDIIVKHGTPHMRTLGIDPHEAVKAVDKLREQGMTARDAYGQVGMTQSQYYKTKKGVTNRK
Ga0181423_10051634F054046N/AMKIEVTKEAAVKLIGNDEKSWRDYKQTELAETSFYHGHGVNLEVIHNYISEITQYYITDINA
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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