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 Ga0187820_1000040

Scaffold Ga0187820_1000040


Overview

Basic Information
Taxon OID3300017924 Open in IMG/M
Scaffold IDGa0187820_1000040 Open in IMG/M
Source Dataset NameWetland sediment microbial communities from Neuse River Estuary, North Carolina, USA - SO4_5
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)21952
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (57.14%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Wetlands → Sediment → Freshwater Sediment → Coastal Wetland Sediment Microbial Communities From The Mid-Atlantic And Southeast Atlantic Coast Of Usa, Responding To Salinity Intrusion.

Source Dataset Sampling Location
Location NameUSA: North Carolina
CoordinatesLat. (o)35.9061Long. (o)-76.1569Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000512Metagenome / Metatranscriptome1064Y
F000696Metagenome / Metatranscriptome931Y
F000739Metagenome / Metatranscriptome913Y
F000781Metagenome / Metatranscriptome895Y
F001619Metagenome / Metatranscriptome662Y
F006229Metagenome / Metatranscriptome378Y

Sequences

Protein IDFamilyRBSSequence
Ga0187820_100004011F000696GGAMPVVGSSAYNSAGQITSLVRSLLNDAQGNLFTDTILLPYANSAYRKVQRALGNAGAGGFIQDDVLLVVTAVAETDSSLQVSITDATAPPNQLPTDLLVPLKIWERPNGSTDDFLEMVDVSQHGGLPSRVQDVTLSIWEWRADGIYFLGATQDTQIRLRYAKAYPDFTDSTSPVLIRNAQEAIAYATAALAGWARGSPLAEKWDDAAADAIEDLVSAAVRREQQSARRRRPFSSRSGYAPF
Ga0187820_100004012F000739N/AMKRLELKQFELWIKGIVAAAISGGAGGILTGFAAVGIDPQHFNLQTGMGATLRIAAAAALINAVIGVAAYLQKSPLPNE
Ga0187820_100004013F000512N/AMIRVLRETHDTPENIVRRLKRAGGINRFDEPNYRAVWGWNRLSWIGGKFVEHDPVTGSLLREVVELRQEPKYPAVNRWHIERWVPPEVYGSPRLWYAQTIERENGMSIPALGPYPSRGEYEHCFTLEGPSGEFIQLTPAAAEHIARAIEFSRRFPRSCKKRSLDDRAQREERAYDAWAYDQLDNAVPAFHNQAFVTVA
Ga0187820_10000402F000781GAGMLTVAQLAPIKDRDPYLYETLTKIVSSVNATSQAAGGDPSTPTPAPTTVASINVQASNGWFDISVTDPSNSRPGLFYFAESDTTPAFNSPRVYFMGASRNLYLQLGNQTLYWRAYSQYVGSLPSAPITFGTPPTAVAGGGSTGPAPLPSSGSGVLPNGQVRGGNGFGINPGSRITRNILL
Ga0187820_100004021F001619N/AWCSMLNWFRKVLQLKYVGLLEADVARLRAENRALMNSLLGTAGFPPVEFPEAPKPQALPRLRKRSWHQIQAWRQSGAERDAADNAEFVGAAKGNGPVPHS
Ga0187820_10000406F006229AGGMLTATATESSTVSLVNISTEKWPPRHRTYFGSLVICSPETGEPFAITPIRGCKGVIDIGDKRFMDYRVTAREVAEDIARELNGDSGEGSFHGVFVAAGETPTESELVDARRRLEEFHRRLVASADLEWERTRNPMFITDLERRAARQLGLEKPWVYDSKPLAECPVCAEKIKHGVAVCKSCGAILDREKAAQYGLGPQEKHRKDGSASQERVGKQPHEAGK

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