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 Ga0181424_10002089

Scaffold Ga0181424_10002089


Overview

Basic Information
Taxon OID3300017786 Open in IMG/M
Scaffold IDGa0181424_10002089 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 47 SPOT_SRF_2013-09-18
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8956
Total Scaffold Genes23 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)21 (91.30%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
Not Available(Source: )

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?
F000375Metagenome / Metatranscriptome1217Y
F004646Metagenome / Metatranscriptome429Y
F015716Metagenome / Metatranscriptome252Y
F025259Metagenome / Metatranscriptome202Y

Sequences

Protein IDFamilyRBSSequence
Ga0181424_1000208910F025259AGGAGGMIASKAIKVYASVGQPDGEYVTTVFTPHDAIQARTKLFKRTGVRRVIFKTPKGEELSFSNDRVSKL
Ga0181424_1000208917F000375GGAGGMSKMYELEPMILDCWRVCNDLEIVFKQVGDGEHTEDELMNALIGMQQLYEWKFEQLFNKYEEKLRDKE
Ga0181424_1000208921F015716GAGMNELGQGFFAGMFAMYVLALPLLYHMVEPEDPEENRSGPIKFAFLWPVIALEVIYRIFVGEKDNDGTGPN
Ga0181424_100020893F004646GGAGGMIYAIADVPHEDYDNYDMLNKLFHALSPHGWQNSTGKNDTCPSLEKEELHGNTCRIFVDYINPEMREDPRWRLLSYSCYDAEGMKTFHEEFDDVDKLIGFLTEKVN

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