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 Ga0070761_10000062

Scaffold Ga0070761_10000062


Overview

Basic Information
Taxon OID3300005591 Open in IMG/M
Scaffold IDGa0070761_10000062 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
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)70460
Total Scaffold Genes65 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)50 (76.92%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(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?
F000729Metagenome / Metatranscriptome917Y
F004030Metagenome / Metatranscriptome456Y

Sequences

Protein IDFamilyRBSSequence
Ga0070761_1000006249F004030GAGGMEEKQIREEFDTGLSKIRNEIKSRLVPHGFFGSVTCVDIEGADHVPTGSTISIAVKGRIVERSFSRQDVEGCRLRVGGVVLSGIISVVDELSK*
Ga0070761_1000006264F000729AGGAGVNHYKPNPGVGRPSISAADDPMLDYRTRLVQSQAEAAERRRMDLAEQCSRLKTAEERIRIWERIHEVTLPRDSEHRLLDIIAANTGLSTADIRDEQQRRATLRAAV*
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