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_10001681

Scaffold Ga0070761_10001681


Overview

Basic Information
Taxon OID3300005591 Open in IMG/M
Scaffold IDGa0070761_10001681 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)13850
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (77.78%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

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

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?
F001247Metagenome / Metatranscriptome737Y
F019863Metagenome / Metatranscriptome227Y
F057547Metagenome / Metatranscriptome136Y

Sequences

Protein IDFamilyRBSSequence
Ga0070761_1000168111F019863AGGAGGMSYSEARNHFERARNNTADKSIIDLLAGLKHLSHAIEEDSRALEQGIRNIRDVQNSKQVPQSFS*
Ga0070761_1000168112F057547N/AVPLGDMAARYPCAAVACSFITLAAWVRQLPFWLLNSRVVTEYLQSGHLNVLKPLIIIMV*
Ga0070761_100016818F001247N/AMKMKTWTVIANTGQQADLESGLEKKEVQKPTHISAREFVHWLAPESHVDDDSLRSLFKL*
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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