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 Ga0070743_10000273

Scaffold Ga0070743_10000273


Overview

Basic Information
Taxon OID3300005941 Open in IMG/M
Scaffold IDGa0070743_10000273 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary, USA - metaG S.697
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)20006
Total Scaffold Genes48 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)33 (68.75%)
Novel Protein Genes9 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)7 (77.78%)
Associated Families9

Taxonomy
Not Available(Source: )

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000376Metagenome / Metatranscriptome1216Y
F000473Metagenome / Metatranscriptome1097Y
F000671Metagenome / Metatranscriptome945Y
F007921Metagenome / Metatranscriptome342Y
F012975Metagenome / Metatranscriptome275Y
F014017Metagenome / Metatranscriptome266Y
F016396Metagenome / Metatranscriptome247Y
F021988Metagenome / Metatranscriptome216Y
F073544Metagenome / Metatranscriptome120Y

Sequences

Protein IDFamilyRBSSequence
Ga0070743_1000027313F014017N/AMGDLSTYLDEKIRQQIADEIRYLELPPEWRPFEVIRYIVRIIEKSNG*
Ga0070743_1000027320F016396AGAAGGMRKSERLRLLEMQVVRLEMMVELYTQTLSNLLESQGLSSPTQLDAGKWYKAKLDKLDNE*
Ga0070743_1000027324F000671GAGGMEKILCYCCNKTKNKLNLKKSVLIPINLFMCETCISSKFEPRWVIILAGRQLGSDSVKEFIIKKRYHGNDIAASELLV*
Ga0070743_1000027325F073544AGGVREYYEVINIVFIHEERLWGTCDSLGLYASKIKYQKDGIEYEDMFDNEEFTVMEEIVLEHSEEEN*
Ga0070743_1000027326F000473AGGMEFINKDKDHFKHGINLWNGEPNKAVFYTKEMSTKIRELKKPVIDLQLDVVQYPEFLAVRLYEDNFIQYEGIKKEQVIDYVGKVKKLIESYGVRCELEGVPSARILRSN*
Ga0070743_1000027328F012975AGGAMLNLTLKGVEVFMERSKHNKQESYWENYDLLIWKKDPGGFTNVKGMFRKDSWGIAERVPVNENGIWKLPKHYVKYFK*
Ga0070743_100002734F007921AGGAMIDWLVNRIFRWDSLRHAIFDEVRMYDELDKRIKEYKDEEPTNLTWSEGDRWYGWTYNSNAKRYYFDDIGNESLMGLWEDQWLREADEAEAK*
Ga0070743_1000027347F000376AGGAMSTYQEKAKECKCCGKHVPLPTILKEYNGIVLCPTTFSNVVEYKRIWVSFGKRPMGNIRKHFSEYVQQIVEETIDKNEDGTL*
Ga0070743_100002739F021988N/AMSNFKKDDGTGMVTPPAAGSASGAVTSRETPKRYPRQGLKVDTNKHGIRRETNLNQPPSKKGRPKKV*

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