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 Ga0181388_1052871

Scaffold Ga0181388_1052871


Overview

Basic Information
Taxon OID3300017724 Open in IMG/M
Scaffold IDGa0181388_1052871 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 11 SPOT_SRF_2010-05-17
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)980
Total Scaffold Genes3 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → environmental samples → uncultured marine bacterium 580(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?
F002915Metagenome / Metatranscriptome521Y
F004166Metagenome / Metatranscriptome450N
F098743Metagenome / Metatranscriptome103N

Sequences

Protein IDFamilyRBSSequence
Ga0181388_10528711F004166N/AMKKLILLFLLIPLISCSDHETNSSWGSYATNKETQKQEFWFISYKTREECIADMQWQLEGEDDPNKKRISILHTKPYGCHFMSNNKWLSMYYYLVYKDEDLGCLWESSNPNVRIKYSVTLKTFVNVPEQGRCILGE
Ga0181388_10528712F002915AGGMKRLILLSLIIPIIGQSKEVFTNDQGLKIEYIKPSVSCFYDKEAYEGYLNTCLMLPNYETCAQTKYENYICSDQNMIKKLEKKAKETE
Ga0181388_10528713F098743AGGAMKYLILLCFIIAITTCAMAHDKSSEFYIPSESNAYQGRLIYD
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