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 Ga0102873_1001802

Scaffold Ga0102873_1001802


Overview

Basic Information
Taxon OID3300007545 Open in IMG/M
Scaffold IDGa0102873_1001802 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1547B-3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6869
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (77.78%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Associated Families6

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2314Long. (o)-123.8828Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000441Metagenome / Metatranscriptome1136Y
F001125Metagenome / Metatranscriptome769Y
F001460Metagenome / Metatranscriptome690Y
F002935Metagenome519Y
F003422Metagenome / Metatranscriptome487Y
F084239Metagenome / Metatranscriptome112N

Sequences

Protein IDFamilyRBSSequence
Ga0102873_100180211F001460N/AMINAVHDAKLFYLRTPSDLMDKTELRKDLEDAVSFLQGLWAEGYFD*
Ga0102873_100180212F084239AGGMEYLKIHEISLMQDLEEIDYVNEHHFYRCKEAEILNTRHILSVATDIMNNSNEREYE*
Ga0102873_100180216F000441AGGAGGMKMSDVYINDQLNKAQQLLWGGSETENIEAHNIIAKLIKDRIEQTDLT*
Ga0102873_10018023F002935AGGMRDRTKGYVGNVLDGKKLAIIATEIVKAQYNNPSELTIDNLLLIELEEKNVFGDPKYAVVCSEGVGWEQDEYGCLEIPTNIGAMGLYNGRVFISIDKVKSCQTLFKEDISDYIRTFGDRLDRNCSLWQSKMSVEPATILG*
Ga0102873_10018024F003422N/AMTNELVSSKYTFVCDPDECDSLIELTSSDGFGFPSGVTELTCPCGRKTTLLSVEHATIPPITTTKEEKMETTTPAVIVPDTYNANLLVTYKVIKGYSDPEYATDKVASIEWDLHNARQTQKRNAVLQDKIDAVKDIITEAYGDSDDQETLRSIAEALDIALTRTIEWSATIEVSGTMELDLLEDSDTDVEQEIYDNLSVDTNHGNIEVIDQEVTNVREN*
Ga0102873_10018028F001125GGCGGMGDRANFGFKDRKGDTVFLYGHWAGHRMLENLANAVEAARPRWTDESYATRIAISHLINDEWKSETGWGISVNALTDNEHKVPVIDWANATFTLMEEDLTTEVFSSSLDVFVNKYSQLEEPAMV*

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