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 Ga0181397_1002619

Scaffold Ga0181397_1002619


Overview

Basic Information
Taxon OID3300017744 Open in IMG/M
Scaffold IDGa0181397_1002619 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 20 SPOT_SRF_2011-02-23
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6242
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (57.14%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F020913Metagenome / Metatranscriptome221N
F023859Metagenome / Metatranscriptome208N
F025038Metagenome / Metatranscriptome203N

Sequences

Protein IDFamilyRBSSequence
Ga0181397_10026191F020913N/ALQKEPSEFRKVQYVLELEGFICSLDPEFNKNGNLRKAVNRLRTEYNALIYTEVCNCANKQYAKLKKDGSPFMHKAYIKDWAL
Ga0181397_10026192F023859AGGAMKKVIVKFIGVKTYTVVDEADPEIIKNKFRKDLELLPPIWANNIKAVMYADDLQEDENF
Ga0181397_10026195F025038AGGTGGMVGIIGTVLSIVGGDMPDQVNKNHRRMFVEDEYELYDVRKARPFWNDVCEVNGWEIVKDEEDFKEDYVCKINNELYFMELQVVGYWHNFDLSKISNVRISASKVRLLREKDNGGLIFLNCVPNRFFAINVNQVTPKMKKDSVREQFYEIPLRTINPREVNVLDTNYCDCLEQHLPIMQRSGGRMAFAQKDYNIRGANGICCR
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