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 Ga0102861_1019208

Scaffold Ga0102861_1019208


Overview

Basic Information
Taxon OID3300007544 Open in IMG/M
Scaffold IDGa0102861_1019208 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1449B-3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1689
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)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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)46.2327Long. (o)-123.9168Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000821Metagenome / Metatranscriptome876Y
F001477Metagenome / Metatranscriptome687Y
F003863Metagenome464Y
F005558Metagenome396Y
F027417Metagenome194Y

Sequences

Protein IDFamilyRBSSequence
Ga0102861_10192081F027417N/ARPMSYDYRVTFVTDYLTITTNVCLELDDTIGNLSDEAYEQATINGMNNIEDEIGKIDETVINDITVTLLLDEAEIELGSFGEFPPVHVEVIE*
Ga0102861_10192083F005558AGGAGMDKDTMYWSELAELTHATQVEKFNWCMCEDNDGEENPYADCPKEESK*
Ga0102861_10192084F000821AGGAGGVNKEYLEAKFNLCINEAEKDLQEQEIARAIKNLQRANSALTRLFGFEEETENE*
Ga0102861_10192087F001477AGGAMSNVYTIHPPKSDLILFYEIQEPNGGNTWGGGEAKDAIQWLFLAPVGSRVLVSAWDSDEEDAHLVGQTIDITEIIQQAREVGL*
Ga0102861_10192088F003863GGAGGMESKQVSGRQSIHYRNYRRARDKALVRLAHLYPDTYKQLLDEQRSFDEQEGKSWIINPDSRLTIAVHTRANAVPDVAGRTDYDSSDEGYNGGEA*
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