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_1019713

Scaffold Ga0209535_1019713


Overview

Basic Information
Taxon OID3300025120 Open in IMG/M
Scaffold IDGa0209535_1019713 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)3450
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (63.64%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → unclassified Opitutae → Opitutae bacterium(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?
F002390Metagenome565Y
F048911Metagenome147N
F072846Metagenome121N
F087881Metagenome110N

Sequences

Protein IDFamilyRBSSequence
Ga0209535_10197132F072846AGGAGMSKTALTLFEVFAFKQINGQRACMKVLDVQAHTPDDAGKTGKSFSKMMSYEYSHVKEVR
Ga0209535_10197134F048911AGGAGMNKPVNYDLWKQAKSTLENIEEELREARFHNDTESIEYFLKEKRDTHALITQLETKEETL
Ga0209535_10197135F002390GAGMKHATQLFPIALQELIAIGEKARKQREKGERAKRGALPRETGACMHAACKEKQAKQLQLQLK
Ga0209535_10197138F087881N/AMNNLIELTITFPESETQTMILGKGSEAYKQMIDYAEINEGVTSEKPHVNIIDHSKNHYLCDFRVADIVEIHTKQSLEAEYRGSNLYDITQGANEKDWNYKGEQITFSELMEKLDRPPNTYSEEARSYHGEIDHDYYIHEDGGMLIKRIW
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