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 Ga0224906_1000204

Scaffold Ga0224906_1000204


Overview

Basic Information
Taxon OID3300022074 Open in IMG/M
Scaffold IDGa0224906_1000204 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 56 SPOT_SRF_2014-09-10 (v2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)34388
Total Scaffold Genes54 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)46 (85.19%)
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?
F020172Metagenome / Metatranscriptome225N
F022785Metagenome / Metatranscriptome213N
F066736Metagenome / Metatranscriptome126Y
F087132Metagenome110N

Sequences

Protein IDFamilyRBSSequence
Ga0224906_100020420F066736AGGMKVKEKFHNNHDGTFVVEKQFDNTPYLERTAKLRSMGAGKLPDSWCVGSIPMHLLAQWMKEERIAWDDIEGRKKLIMRKLNDPDFKKLRIVEGTV
Ga0224906_100020421F022785AGGMTIERSVAKLEAQQEAMAQDVSEMKSALTSIAQTLQDLSSMEQRQVHLTETVTRAHKRIDEIQSVLKDEVKNHEKRIQAIEINIAKNQWIERIIMAGVMTCIGLWIKGGM
Ga0224906_100020437F020172GGAGGMCTKVKRAMFCTRNGYKHIESLEEVCVLVGRLKGLTESEYLDLCAINKLENARALEMAKYYPVR
Ga0224906_100020445F087132GAGGVATTRRHKIRAVKDEENRRALSVRGKAEYIFDLIDEIGELDPQTDDHFQAKVQQKKTQAELRLKMLAKTLPDLKQVDADLSSSDGSMTPPTVIELVAKGLD
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