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 Ga0209274_10000003

Scaffold Ga0209274_10000003


Overview

Basic Information
Taxon OID3300027853 Open in IMG/M
Scaffold IDGa0209274_10000003 Open in IMG/M
Source Dataset NameReference soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire, USA - Hubbard Brook CCASE Soil Metagenome REF1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)328943
Total Scaffold Genes271 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)205 (75.65%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Soil → Soil Microbial Communities From The Hubbard Brook Experimental Forest, New Hampshire, Under Manipulated Climate Change Conditions.

Source Dataset Sampling Location
Location NameUSA: New Hampshire, Hubbard Brook experimental Forest
CoordinatesLat. (o)Long. (o)Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000078Metagenome / Metatranscriptome2550Y
F000272Metagenome / Metatranscriptome1408Y
F014166Metagenome / Metatranscriptome265Y

Sequences

Protein IDFamilyRBSSequence
Ga0209274_10000003102F014166GGAGMSHEPFLAKRILLTVAALLVPLALLLGPTRAQTPNKNDAGGSVPTNVQQELVRIETGFFEAWKTKDQAYFREHMLQNGVFWGENGTFSRDQQLGDQQTSAKACTVEGYGLSDFGALPLAAGAYLLTYTAQQYGSCNGEKLPVHLNGSSIYVFKAGRWQAIYRAEVPLKNQG
Ga0209274_10000003207F000078AGGAGLENMRCLRCSRELEAGHKSVALYMFAQTVGIKPRQKSTAHRISFCPQCSVSLAMGPPPEGALNMAAWDMIRDLVGSDPALNQAAWENLSGILGLLPATGTDGGPRQRQSAGYFEF
Ga0209274_10000003266F000272AGGAGGMSQTVVERTAEHIGRSARQASRATNMVADAIEDGVGVVRRAAKEGGDAAEEFLNDTNQRLQRHPLLTVATTFAIGVTAGTFIGWMMKRR
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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