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 Ga0181428_1016194

Scaffold Ga0181428_1016194


Overview

Basic Information
Taxon OID3300017738 Open in IMG/M
Scaffold IDGa0181428_1016194 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 51 SPOT_SRF_2014-02-12
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1719
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales → Rhodobacteraceae → unclassified Rhodobacteraceae → Rhodobacteraceae bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Strait → Unclassified → Seawater → Marine Viral Communities From The Oligotrophic San Pedro Time Series (Spot) Site, San Pedro Channel, Ca, Usa

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)33.55Long. (o)-118.4Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F026408Metagenome / Metatranscriptome198Y
F039876Metagenome163Y
F072251Metagenome121Y

Sequences

Protein IDFamilyRBSSequence
Ga0181428_10161941F039876N/ATAMIYKSLFLLVFANMFNQAYQMQNVTCPKWVPGTNQILPAGVTLSPELELKNRVRCYCEIVKPQERGCIANNIPRNLCEARTAAWVEDNLMLRENFRRAQAPLPQRDRMINIEP
Ga0181428_10161942F026408AGGALNRRGIALILVLVMSALIGMSAMLLFSTTNMETMISGNVRRINQAKMSSMSGLNHFTALRFDYDALREQAGDLQTLQILSETRLSDRTFYEVKVHFCCGLNEGEYIVESIGYYKKSDKILASKITRALFSSGQTN
Ga0181428_10161946F072251N/AMKLLMEQWRKFLYEGISDVVYHYTNGLEKGAKILDQNKFLASGGFTKDVESELGKGKLYYFSTARTPANAYTGNYPQGVIFKLDGRALGQKYKGVPLDYWATKKRSSKKAANLDPGETEGFEAKDRILLDEPYIEDADRYIDEIHF
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Institute for Fundamental Biomedical Research
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