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 Ga0115566_10021040

Scaffold Ga0115566_10021040


Overview

Basic Information
Taxon OID3300009071 Open in IMG/M
Scaffold IDGa0115566_10021040 Open in IMG/M
Source Dataset NamePelagic marine microbial communities from North Sea - COGITO_mtgs_120405
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4759
Total Scaffold Genes13 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (61.54%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → Viruses → unclassified viruses → Circular genetic element sp.(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Pelagic → Unclassified → Pelagic Marine → Pelagic Marine Microbial Communities From North Sea

Source Dataset Sampling Location
Location NameGermany:Helgoland, sampling site Kabeltonne, North Sea
CoordinatesLat. (o)54.1883Long. (o)7.9Alt. (m)Depth (m)1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004537Metagenome / Metatranscriptome434Y
F032859Metagenome179Y
F078540Metagenome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0115566_1002104010F004537GGAVNILAFFSKPAINNFQINSGNVPLLYPVRVICPAGVTTGISFPDQFLGRAISLKISNNDSANAASYDYNLNGQFQNLAASNFATIDNTIVNYLTITAGAAGTTLVEAQVIPASRDEVPIEVTV*
Ga0115566_1002104011F032859GAGGMSFGGGGSGGSSTVAAHTHNSSLSGDGGALSTTLTQIGSSNLYTRIITGA*
Ga0115566_100210406F078540N/AMVRFNETLIVGISLLAALVLSKGRESVSSLSNIPFINPFTDLLSKAQAQAIEKQETNIGTLENIRQSNLGIAQDILDYEKNISNVKINQLQTELDKTQSFISQQQKVPAGSTLGLSGTGQSLLKKFNDTFNYYSKVWTGEKGPLNQVSIYPDVYIPLNQSTRAAFAQQAEFEKAQERIATANELVFRQQGEIDRLQEEYQTRYGNLSRYG*
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