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 Ga0255090_1000680

Scaffold Ga0255090_1000680


Overview

Basic Information
Taxon OID3300027123 Open in IMG/M
Scaffold IDGa0255090_1000680 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Columbia River, Oregon, United States - Colum_Yuk_RepA_8d
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10295
Total Scaffold Genes20 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (20.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Sampling Location
Location NameUSA: Oregon
CoordinatesLat. (o)46.1812Long. (o)-123.1834Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000922Metagenome833Y
F001964Metagenome610Y
F028148Metagenome192Y
F086618Metagenome110N

Sequences

Protein IDFamilyRBSSequence
Ga0255090_100068011F086618N/AMKSIQRIETAVGNLINGNLTHARKSARGLTYSDIFDWLTGPVGWPESRSRACANYLIGRIDYRTYCNADR
Ga0255090_100068012F028148N/AMKTIHEIIQEIQFFDPAIRAFDAHDLPQSVRAYLHHNYRMDARLTDEEQQLIEVSFEPFADNIREVFQDDPRPDATRFYLFDDLSLYIRTNAGPELWADAQVFVVERILPAMRLTRLEADLMREIGMDEQVSEVRDDFYSSFAHVLHRDCGIPHCDAREHWNAWSNQLSDSACESIVLGGGESGRVEGLRFASEYAVKA
Ga0255090_100068017F001964GGAGGMSRNLFAPPIFKVQINGAIGWSDLKQRVVSFRTIEYATRKEAESAAKELNPGEYTQGRIRVVPVEMPEDYDVYPVTERVSEKPKSAG
Ga0255090_10006807F000922N/AMGNCWGKRGKTKRGKGVATGNATADPDSMTKAQWERAKAEYLTGKGWKAIADDLSVPMDTLRSRACREGLTKVKAQMQTVCIEKKTQSLESLSALVRSKLAADAASTLERIDSYDLDGIKDESTREQILGSVAKRSALVFGWSEQGESASVSINLLGSMPDRVAEIQVTNETETK
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