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 Ga0209953_1002438

Scaffold Ga0209953_1002438


Overview

Basic Information
Taxon OID3300026097 Open in IMG/M
Scaffold IDGa0209953_1002438 Open in IMG/M
Source Dataset NameSalt pond water microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R2_restored_H2O_MG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5075
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (94.44%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Non-Marine Saline And Alkaline → Saline → Unclassified → Pond Water → Salt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration.

Source Dataset Sampling Location
Location NameSouth San Francisco, USA
CoordinatesLat. (o)37.4958Long. (o)-122.1331Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F034945Metagenome / Metatranscriptome173Y
F042350Metagenome / Metatranscriptome158Y
F076122Metagenome / Metatranscriptome118Y

Sequences

Protein IDFamilyRBSSequence
Ga0209953_100243810F042350AGGAGLPGRENDYDRGYLRGVSAMMSLITSDKVKYLDKTNVLQYAKQLVEQQKEDNDR
Ga0209953_100243814F076122GAGLLANVSGPLYSKGMAKHEVVNEIIEYMDTRRSELSNEKMNHFVGSRDWEELDAMYEVYDHLIAKLEDDYR
Ga0209953_10024384F034945AGAAGGVGDRATVGIRGTDNNTIFLYLHWGGLDRHEIVANALAHAMGRDSDESYFTRIFVSRVIDRDWDKETGVGMSINKLSATGDGYDVPIYDFANKTISVHKEKWDSAGGYLDLTPLVIYNRDEYLAEYAVRGAGAYV
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