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 Ga0181379_1002201

Scaffold Ga0181379_1002201


Overview

Basic Information
Taxon OID3300017783 Open in IMG/M
Scaffold IDGa0181379_1002201 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 2 SPOT_SRF_2009-07-10
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)9038
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (88.24%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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?
F005843Metagenome / Metatranscriptome388Y
F027482Metagenome194N
F054773Metagenome139N

Sequences

Protein IDFamilyRBSSequence
Ga0181379_100220114F054773AGGAGGMTKQENIISIVSEAVEKAWEGSSSAKEASEKYLAMLQQDDVLREEATRRHLERIAYLDVVAQPRGYRARLKLAAHQVVLSKGETSTPAVSLKNMAPAYAKDMFERWLLPNTGICLGDATSEDLEQAIMHETSRSKHHEGQRSFYSAIKARVTDDKVVRDVWNISEVKAEYEQALVE
Ga0181379_100220117F005843GGTGGMTLAEPVFMAFVIFSSPDECKAFAKYYDLARIFEPQCVEMGGEADYRRPWPDVRPQPRPTQESKNG
Ga0181379_10022016F027482AGGMDKKGLEKWLDRMFAEGKAVTYPCGHFVGREWCRSFDEKLASCLTLAELEGFANRRRFDPNLPRWTAVERAEILKRKIKLEKGKRK
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