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 Ga0102859_1000050

Scaffold Ga0102859_1000050


Overview

Basic Information
Taxon OID3300007708 Open in IMG/M
Scaffold IDGa0102859_1000050 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1371B-02
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)25393
Total Scaffold Genes44 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)33 (75.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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)46.2342Long. (o)-123.9167Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005703Metagenome / Metatranscriptome392Y
F012971Metagenome275Y
F016392Metagenome247Y
F026857Metagenome196Y
F097250Metagenome / Metatranscriptome104N

Sequences

Protein IDFamilyRBSSequence
Ga0102859_100005020F026857AGGAMTKNEANRLLDEVRDGNRLHPVVRITEALYTTGDCVRNIPIHTRPFGETSINEWLESSGMASGERIGNAPNRDIQGHQSGIDQNNEGNQ*
Ga0102859_100005027F016392N/AVKTAFDYQGPSVWLRDKQLKRYIQGEQSAKKRQEKGDINDKNQVLIYSKSLFDKK*
Ga0102859_100005029F012971AGGAGMMIDLEREKWMALQDINSEDVADAICDSQAIVEAIQSNAWADVADMVRSRVELKAERLAQTALEIPLTPWVDSDEELQLWRYYRMELQREAIEQNKPKLPKINPYHSEASNEN*
Ga0102859_100005030F097250AGGAGMSITVRSALNLATQQINVAMTRFLSYFQIWTPTLSLSERTKLRQKAARKLKEKPKTQRVVMPSKLITDPSFGYVNSALTDVSATWKKHSTGVKNAGLFNNPNADRENDKEVRGEVPTQKIRRVQ*
Ga0102859_100005041F005703GGGGGMGWIAACVLIALLLPIMGILYLDILETKNEAKSQIEKVEKLRRQVEQKDREKEK*
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Institute for Fundamental Biomedical Research
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