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_1002583

Scaffold Ga0224906_1002583


Overview

Basic Information
Taxon OID3300022074 Open in IMG/M
Scaffold IDGa0224906_1002583 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)8306
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (90.91%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia 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?
F003693Metagenome / Metatranscriptome473Y
F039872Metagenome163Y
F092017Metagenome / Metatranscriptome107N

Sequences

Protein IDFamilyRBSSequence
Ga0224906_10025832F003693AGGAMIQSKLALIDVSADNNDSLGVEAEGMLLCGVQFPAAMTGTAITFDFSLDNSTWVDVKETDGTEVSYTVSAGDVVRVDPSGWAFASNGYLRVSSNGTEAADRKIVLHFRHS
Ga0224906_10025833F092017AGGAGMGMLLVLKEGRTLAIESIATPQEPIEPSAPIVDPNDNANDGWFGTGAFAQAAFAAELVEEGAA
Ga0224906_10025834F039872AGGMSLNISGLIDRVYREYLEPMDDVTSYTTLFTGVTDSETTITFAGELLTQEEKDAMDAGTIIECDTELMRCVSLDTVNNSVVVVRGVRGTDKAAHLAGAVIKIAPPFPRQVVFDAIKDQINNLFPTLFAVDTQSITTGTGYTLIGDYSSPGTHNYIVSILSAISQYTDFSVGSDTTGINFNPVTSSLVELPNPFTYTDADGVSRTITYSTGPSVVHAIQFAGISSGHTAHVTFKKKFIEPTAESDTLATIGLETEYEPIVMAGVAAQLMAGRDIPAATTDYISDQMSLSSYPVGSSNSIRNSLLQYQQLLINQARKYLRAKYPEAVSVDGMVYGIQA
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