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 Ga0187806_1032062

Scaffold Ga0187806_1032062


Overview

Basic Information
Taxon OID3300017928 Open in IMG/M
Scaffold IDGa0187806_1032062 Open in IMG/M
Source Dataset NameWetland sediment microbial communities from Neuse River Estuary, North Carolina, USA - ASW_1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1559
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(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?
F000042Metagenome / Metatranscriptome3762Y
F001851Metagenome / Metatranscriptome626Y
F005065Metagenome / Metatranscriptome413Y
F013120Metagenome / Metatranscriptome274Y
F018222Metagenome / Metatranscriptome236Y

Sequences

Protein IDFamilyRBSSequence
Ga0187806_10320621F005065AGGMMILMMDANYISERLGSMRQEISDLRVTTARYWSKDQHTALEKSAFALRKGRLLEIKREVSDMMKRCA
Ga0187806_10320622F018222AGCAGMSPDPRKTWQYFAQAVIQEEDPEKLTYLMQQLYRVLKDNEEQPMRTF
Ga0187806_10320623F013120GGAGGMEYFRFDHPPDRLILCHRSNCEDIADYLEINEQGREDLVCAAHTTSERHASVLPKGVPRVERHRSRTAA
Ga0187806_10320624F000042AGAAGGVKNTKFVVKLNRGGIRAPEFVQRIDRTPIQMTTNRKLALVMGKFMAEDTIKSLQNSRRIPELISVQVEYGQLSA
Ga0187806_10320625F001851AGGAGMNLTSFSFGLLIVLFTILLLHKMHKLKPRIAGYGSQRMCPSCGLITSRLKPCCLECGKSLTSVSVTPILEK
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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