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 Ga0181412_1004355

Scaffold Ga0181412_1004355


Overview

Basic Information
Taxon OID3300017714 Open in IMG/M
Scaffold IDGa0181412_1004355 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 35 SPOT_SRF_2012-08-15
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4776
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (78.57%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Acidimicrobiia → unclassified Acidimicrobiia → Acidimicrobiia 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?
F002318Metagenome / Metatranscriptome571Y
F002586Metagenome546N
F006528Metagenome / Metatranscriptome371Y
F008385Metagenome334Y
F079225Metagenome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0181412_100435511F006528N/AMKEKEKLLTDIELEKLKIATFKSIIEGSRSINGVTWNKIKNLKRKDKIKCLKQLSQ
Ga0181412_100435513F008385AGGAMINKTNIYGDYKVCVKCSDPADVIESNKDYCIECWHKKVNGKSFKEVEKKMKEEERFIKK
Ga0181412_100435514F002586AGGAGMIKVKLEPNEVELALNVAAKRYIGNLRMGKSFSYGHSGGFKITINDGILGALGEVAYAKGTNSFYNGSYSDNKQFYSDSDFQNNIEIRTQEKKSYNFLLIRPGEKKGKYFLILKDNDKDFNFSIIGSFIYNDDLPPEKLTHLGHFERPPVYKIELKELKPMEEDVRQDKF
Ga0181412_10043554F079225N/AMTKKHISETSSMYKVTDLYNHNNFIHWTKDKKYTGESMSNINPFGESYKIYDLIDNEGFIYYEVYKMGLSKDKKELDNTNDILLLTTYDNKQVNKYINLIN
Ga0181412_10043556F002318GGAGMKAKDYKSITNILESQNKGKKFYDFMDMEDVKYRIKEDIIPLPKQYFNNIVKLIKGEK
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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