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_1001284

Scaffold Ga0209535_1001284


Overview

Basic Information
Taxon OID3300025120 Open in IMG/M
Scaffold IDGa0209535_1001284 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)17252
Total Scaffold Genes29 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)20 (68.97%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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?
F002190Metagenome / Metatranscriptome585Y
F011764Metagenome / Metatranscriptome287N
F012360Metagenome / Metatranscriptome281Y

Sequences

Protein IDFamilyRBSSequence
Ga0209535_100128428F011764AGGAMATVEPKSLYNVSVAEPENAYFTVALVTSGYLDTETVNGGRISPCVASDFATKPTTLAQSLLVSRGALRFKMMCENLALRTNFRIHNVVTTYASDAGDSPITGLDFGLVYENRNLVANTGTSDLGDSTAINSRALFIKDRIADALNSTRTEKMTVFNPTAGTGQIQDIEVTAGPVLLVSKGEILEGITVTEVTGFAPNTDNQLATDNALSYGADDSQ
Ga0209535_10012845F002190N/AMSSKLSYYICLVTKNGKTEEYGYGLPYKDIMKAVWEHYDNGANAVVMEMITEEQFNDRLPKPF
Ga0209535_10012848F012360N/AMLKSQYEKLLENQPWQEMETHFDKLPLAKVEPMAKVKIETQDWIKFTVDNFDLAQQKWESPKEHYTEYSNKWAKVNNDLGRNQHNTFELNYGMNGDTNDKLKNLLGEENISILKADPGTILMRFIVKMPGHGIAWHQDDAGSYQKKFPNADISKLKRLWFSIQDWKDGHAFQISKTVISDWSKGAVYHIPFGVGHASSNFGYAPQYTVSFTGVIND
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Institute for Fundamental Biomedical Research
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