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 Ga0209535_1001363

Scaffold Ga0209535_1001363


Overview

Basic Information
Taxon OID3300025120 Open in IMG/M
Scaffold IDGa0209535_1001363 Open in IMG/M
Source Dataset NameMarine viral communities from the Pacific Ocean - LP-28 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)16751
Total Scaffold Genes28 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (50.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Oceanic → Unclassified → Marine → Marine Viral Communities From The Subarctic Pacific Ocean And The Gulf Of Mexico

Source Dataset Sampling Location
Location NamePacific Ocean
CoordinatesLat. (o)48.9699Long. (o)-130.6666Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001205Metagenome / Metatranscriptome748Y
F002190Metagenome / Metatranscriptome585Y
F004711Metagenome / Metatranscriptome427Y
F049287Metagenome / Metatranscriptome147Y

Sequences

Protein IDFamilyRBSSequence
Ga0209535_100136314F002190N/AMSSKLSYYICLVTKNGKTEEYGYGLPYKDIMEAVWEHYDNGADAVLMEMITEEQFNDRLPKPY
Ga0209535_100136322F004711AGGMARIGRKSTLEWIKEDYKSNPKRFCAEVVGMASNVIAALILMWYSPNPPMFIAYIFFLVATCFLMYGAFSRKSFGFTVMYLVYLAIDGIGFIKTML
Ga0209535_10013635F001205N/AMFKDVIGDWPTHDKFILTSCDDKYFDQYFPRFYKTYNEHWQLPIHVHIIDPSDTSMQRLDNLDVTYTHCTTDKSVLRFPYSYETYCQAQRFILLGYNMLENQSVIVADVDSYALRHPNETQRHTLQSDMAFTEYNGRLMATFCNFHHSQRTQARQSAIKMQHLVEQTDTIGVDQLVIKEIFKTLPYNKLKHEEWIRHFDNRTESDAKKHNQCLIYHEKGTRGKLKTVETTWTDIG
Ga0209535_10013637F049287N/AMYKLFATFCFLVNGAVECTDYNDSDEKIYQELAKCEEMAEYRFYGMTDVFTTYQQPYEKIVIGCVEIED
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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