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 Ga0181382_1001742

Scaffold Ga0181382_1001742


Overview

Basic Information
Taxon OID3300017756 Open in IMG/M
Scaffold IDGa0181382_1001742 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 5 SPOT_SRF_2009-10-22
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)9841
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (38.89%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F004640Metagenome429Y
F012206Metagenome / Metatranscriptome282Y
F032262Metagenome / Metatranscriptome180Y
F034158Metagenome / Metatranscriptome175Y

Sequences

Protein IDFamilyRBSSequence
Ga0181382_10017421F004640N/AVTARLNLTSKQRADGISTELYNLKFPKVLQPPGHVTTKLLATIQHPTTGQWAVVGDDTLTIPVHPQRDVTALVALFPQLEVDERAAMTYYIATNDVVAFQYLMPAASEVLTQEEAEAAGWFSDSP
Ga0181382_100174210F032262N/AMNDGADLLALNLAWLGWELARWQEVIDWSVSALGAVTLVILNLLRLRKAWRQHKAVEKDE
Ga0181382_100174211F012206N/AMSQDIFNFLAKSESTGSDYVRLQDGDKRSVRLLSKPVTGYELFVDGKPVRWKPDAPRPEHAISDERPKKFLAFIVYEYDTEFGGEGRIKVWSFTQRSIIDQMAMLFRDEHWTAYELVVSRHGKGMETKYNLTGVMRPVEENLIAFASEAAKYIDLDKLFTADNPFTEELPALSVEAVKKTNNDLPF
Ga0181382_10017429F034158AGTAGMANRITKAIDKASEAVGAVADSSGNRLRWSTKNTMGGLIVSTACEQVVVHGITWPSIAMCLVGVLPLALSTLES
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