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_10000056

Scaffold Ga0070761_10000056


Overview

Basic Information
Taxon OID3300005591 Open in IMG/M
Scaffold IDGa0070761_10000056 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)76529
Total Scaffold Genes65 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)59 (90.77%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F000214Metagenome / Metatranscriptome1570Y
F002165Metagenome / Metatranscriptome588Y
F003631Metagenome / Metatranscriptome476Y
F004157Metagenome / Metatranscriptome450Y
F009346Metagenome / Metatranscriptome319Y

Sequences

Protein IDFamilyRBSSequence
Ga0070761_1000005621F009346AGGAGMSFEEALGVASRDEGFKATVYAMNTLLIRKGVYTQAEFQMFFVEWVEKELRRKESDGSPLLSA*
Ga0070761_1000005644F000214AGGMKNVYEVLRQKEMELTRLEKEVEALRLVAPLLSEEKEMNSDMVKPALATAVNGPQQPIRIPAPPVVTSAQPVRAAGWDDTAKRWP*
Ga0070761_1000005645F002165AGGAMPEKSDSSVEEVLASHRLELERLKNALGLLGVSACSQCKAFLRRSDPGALFDAGELVCYGCIPEWWPQRCAQLGAKERESLEGKLVFWLRDQHHAETFKDPAKLPESSLQELHIIATCLECHGTGKSLGQDHCRFCEDRGTVWVIVSRKQG*
Ga0070761_1000005649F003631N/AMELLLNLAWVLLALPAYWLWRRDAEARVARRVSSPQCLLALGCVLVLLFPVISASDDLHAMRAEMEESASSKRSVRQASSDKNSAWVNRLQGPPAAVAGAVWLVAPEVEPLEISVLCVAPLARPSVVHAGRAPPFSLLG*
Ga0070761_1000005650F004157GAGGMTRLAFALVMAMGAIAWGQTGAAPGSSSATDQTGQTSQVQGQAQDGDKGLVIEPEELPGTYPYGTYLVNLHVQGNYVPVLHWRIEKGALPAGITLDESGVLRGAAEHAGEFQFVVSVRDGDNPQRAVQRAFVIKVTEAMTLEWGVPAHVTGNRIDGTVAVSNTTADDLDLTFDVKAVAENGRATEIGYQHFPMKRGTIAMALPFGDTLPHGAYVIYVNLVGEVAKRNVIYRQRMQSAKALQVLVEY*
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