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 Ga0222717_10005767

Scaffold Ga0222717_10005767


Overview

Basic Information
Taxon OID3300021957 Open in IMG/M
Scaffold IDGa0222717_10005767 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_18D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8922
Total Scaffold Genes22 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (77.27%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (100.00%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)37.0966Long. (o)-122.4216Alt. (m)Depth (m)38
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004343Metagenome / Metatranscriptome442Y
F008887Metagenome / Metatranscriptome326Y
F029114Metagenome / Metatranscriptome189N
F043377Metagenome / Metatranscriptome156N
F052476Metagenome142N
F085578Metagenome / Metatranscriptome111N

Sequences

Protein IDFamilyRBSSequence
Ga0222717_1000576710F008887GGGGGMSRGCCNECGYKADYIIDNNNYADNGYEDLNQVPKDKMLCGVCYEDSEDE
Ga0222717_1000576711F052476GAGGMSNTINTMILENLFDNVLDQDKKGLLDDEIKDIAREQGLDIYNDRYEILEIITNRIFECKYD
Ga0222717_1000576721F029114GGAGMSEEKNELTFTFDEDGKEYKVEDLSDENKILYNKVTLVNKQRQDVIANANFEVEKLEILGRHYSNALKEAVEGDDTEVEVVE
Ga0222717_100057674F085578AGGTGGMYEVIIEYDNQGPVVVMRSQDLSKCLDKQKRLIQAGHLDCFIARVKK
Ga0222717_100057677F043377AGGAGMNDTLNEVIQDLADLSYTALDLKEDITTGEPSIQTALEKINKIHQVLIFNQDKLIQLTKGEE
Ga0222717_100057679F004343GAGGMTQYKDMIDQARQLLRTERENIPSMSKDFSKDYWILTYPCGKIVKTYQDKRKRDIVIQESYSGGEL
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