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 Ga0208778_1000072

Scaffold Ga0208778_1000072


Overview

Basic Information
Taxon OID3300026025 Open in IMG/M
Scaffold IDGa0208778_1000072 Open in IMG/M
Source Dataset NameRice paddy soil microbial communities from Twitchell Island, California, USA - SF_Rice_20C_80N_103 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6549
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes1 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (100.00%)
Associated Families1

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Wetlands → Unclassified → Rice Paddy Soil → Natural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration

Source Dataset Sampling Location
Location NameUSA: Twitchell Island, California
CoordinatesLat. (o)38.1087Long. (o)-121.653Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F024167Metagenome207Y

Sequences

Protein IDFamilyRBSSequence
Ga0208778_10000726F024167AGGAGMSLVNLTVMYGHLEGAGRGFARDPTGYLSVEAGIFLKHGLDVSWQHVQGTEERYRRLENGSAQISLLVGRASLPHFLTSKSTRILGAAMNSCPYYLIVSPSVNSLKDLRGKVVACREGPSRNTPIADTFYERERLRVGKDLTLQLPNGDQDAFNLLLGGEAQAALLPRPFGFIAEEKGFKRLNEWPEVVDDPLPITIETTVKLFNEREKDLTAFLAAHSEGIGYFKSHRADAMRILTKQFGHSQTLAQKTLDDYITCMDEEIKVD
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