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 Ga0209864_1002665

Scaffold Ga0209864_1002665


Overview

Basic Information
Taxon OID3300027547 Open in IMG/M
Scaffold IDGa0209864_1002665 Open in IMG/M
Source Dataset NameGroundwater microbial communities from the Columbia River, Washington, USA, for microbe roles in carbon and contaminant biogeochemistry - GW-RW metaG T4_25-Nov-14 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2034
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (100.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Sand → Unclassified → Sand → Groundwater Microbial Communities From The Columbia River, Washington, Usa

Source Dataset Sampling Location
Location NameUSA: Columbia River, Washington
CoordinatesLat. (o)46.372Long. (o)-119.272Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001562Metagenome / Metatranscriptome670Y
F005531Metagenome / Metatranscriptome397Y
F014129Metagenome / Metatranscriptome265Y
F043387Metagenome / Metatranscriptome156Y

Sequences

Protein IDFamilyRBSSequence
Ga0209864_10026651F014129AGGTGGMTTLIREITLSNVRADEANLIVCAFCSDYASDTFCGKCKEYKGLMTLGEWLSYTQESWVM
Ga0209864_10026652F005531AGAAGGMKITITYSLWHNGSLLSVGNKAESADDLLAVMSELNKLGKGFTYNVREVEVNK
Ga0209864_10026653F043387GAGGMMTKWDTIQADIADQYRHLDELEALDKINAEAISDSDIVSLDEIIEKELTLDWEAYE
Ga0209864_10026655F001562AGGAGMKSQLEKDLDIKDSFDQALDDMYPDVKIGYSTFTASEILFNCDPIAYQIGLVEHEDYLAEMENE
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