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 Ga0070762_10162524

Scaffold Ga0070762_10162524


Overview

Basic Information
Taxon OID3300005602 Open in IMG/M
Scaffold IDGa0070762_10162524 Open in IMG/M
Source Dataset NameReference soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire, USA - Hubbard Brook CCASE Soil Metagenome REF2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1344
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
Not Available(Source: )

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?
F003851Metagenome / Metatranscriptome465Y
F026325Metagenome / Metatranscriptome198Y
F043015Metagenome / Metatranscriptome157Y

Sequences

Protein IDFamilyRBSSequence
Ga0070762_101625242F026325GAGGMMTDPASAIKREVHQLVDRQIETLRQPACLTTSDLSDYRARSETITRLYGELDQIRRTLFERPLRRAS*
Ga0070762_101625243F003851GGAMKRRNLAPADFRTIDEGAKRVVRALKAARHGCVNANDPIMEQLRQCPEAFKVGEILGKAFDALKYAQDGGEIGDRYLPPAGVVLPPLV*
Ga0070762_101625244F043015N/AVIGLPLDVTFPRIGGIRWRYCTRWDEGPAAILGMSLLRLGICRPNDWSGSAVDFVERGFRRFCSQKRAANVKRVWVGDLRITDSLFELTEQERNQVEAGREGMTDHLYLVGDYEAAASIPIGATLASLEGEHPLLPAAFYQVFTTNLYKWMRVYDYLDAQEHADTWMEDLSTEELESSVY
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