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 Ga0181380_1004573

Scaffold Ga0181380_1004573


Overview

Basic Information
Taxon OID3300017782 Open in IMG/M
Scaffold IDGa0181380_1004573 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 3 SPOT_SRF_2009-08-19
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5622
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (93.33%)
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?
F002399Metagenome / Metatranscriptome563Y
F004603Metagenome431Y
F027830Metagenome / Metatranscriptome193N
F066237Metagenome127N

Sequences

Protein IDFamilyRBSSequence
Ga0181380_100457313F002399AGGAGGMALKNKSHKSILGQMRKKYGLKDNVDPKKAEIAMTPGDWKIFSEALTFPNGKPSKREDK
Ga0181380_100457314F004603AGGAMIFSININGNIIDWCYNLDCQDKQYHKTWIPKLSDIQIITKDLGDLTVSQVRKIILEDIQPDINMVRDHNNKVAKERRQRI
Ga0181380_100457315F027830AGGAGGMNFDIAFGKYSAYFRDMGFGTQLPYISETHSKATGEGGYLLRDENDMHIAYITKDGKVEA
Ga0181380_10045736F066237AGGAGGMFDVISYDANGKEDKVMAKKLQDGFAKVYDNVCKECLGTGKRKITFEDCFGNPIPEKTVYLKCNCKEVA
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