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 Ga0224906_1016407

Scaffold Ga0224906_1016407


Overview

Basic Information
Taxon OID3300022074 Open in IMG/M
Scaffold IDGa0224906_1016407 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 56 SPOT_SRF_2014-09-10 (v2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2738
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (87.50%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Flavobacteriaceae → unclassified Flavobacteriaceae → Flavobacteriaceae 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?
F000720Metagenome / Metatranscriptome923Y
F003020Metagenome / Metatranscriptome513Y
F004988Metagenome / Metatranscriptome416Y
F021188Metagenome220N
F046006Metagenome152N

Sequences

Protein IDFamilyRBSSequence
Ga0224906_10164073F003020AGGAGMPDTSRFKSVSVSTSTHKQLESLAKSRFEVPVSIQKVIEFLLSKEIKSKKRAKAS
Ga0224906_10164074F004988GAGVPKLVETICPRCNGNGYIRMAPVVATVGDSWTEIDCPMCEEEFMHFGMKVKTHNGYVMLPIEDTRKNIEGGRESKIKWSGETLPEVGKE
Ga0224906_10164075F046006GGAGVKEFLTPLGKYTNLVLLLLILHFCITVMVVNFRYIDRLNTTIETMWHEIEQVKETNISLFQFIEEHGDDITGR
Ga0224906_10164076F000720GAGGMTLQDDKIMRHRIPDRMMSTTFTLPIDNRKVVGIVNYIADDNGITPLALWVKIKPTDSYIDRELRASGKLISRCLQHGEDLKDLAETLSQDNIIGQMVHYFQKNVEDIILGVQPDKKQRMLSTDPYVSMMKE
Ga0224906_10164077F021188GAGMATEEIEILWIPEGETKHVFVESTPEGDNIPVDLPASTVDRLCKKKFGHTNWARMGAVVPEELHHNPHEIDYLEGIVYFKNPTMV
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