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_10000142

Scaffold Ga0209274_10000142


Overview

Basic Information
Taxon OID3300027853 Open in IMG/M
Scaffold IDGa0209274_10000142 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)59246
Total Scaffold Genes71 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)59 (83.10%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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?
F000065Metagenome / Metatranscriptome2788Y
F002000Metagenome / Metatranscriptome606Y
F013120Metagenome / Metatranscriptome274Y
F038574Metagenome / Metatranscriptome165Y
F065975Metagenome / Metatranscriptome127Y

Sequences

Protein IDFamilyRBSSequence
Ga0209274_100001421F065975GAGGMRIPLAAALVRARSAALVLAVLCSPVAQAKDHQWKDAKVIDITSEKGGAIVIPIAAFVGGPITRTFYWIQTADTIYVLGPVLTKSQLLNVTLHGPAKLAIDGNNAHVLDDYGKDKKMPIVEKVARPKPEDPQ
Ga0209274_1000014240F013120GGAGMEYFRFDHPPDRLTLCNRSNCGDIADYLEVNEEGREDFVCAAHTSSERHVSVLPKGVPSAEPHRSRPAA
Ga0209274_1000014258F000065GGAMTHGTNKPAPKLRRAPQPPLSHAGAIPDSDRAKRPPLSEPPGTDQELTPGDRVEGLGNFGRPNGEFGTVERANDDDAIVKWDDDGRTRIHQPSLKKI
Ga0209274_1000014265F002000AGGAGGMLKSVKESVYRMTNHLQLINGYLEMEDYIKALAKTRETVKELHKLAESLSGLANEAMTVPKEGAVVVPHGSTVVSYEDVNVDIDSDEVRSVGKNEVRAGCGEANPKTK
Ga0209274_1000014269F038574GAGGMASFDQFPALVCKNCFRPIPLPPATRPDPLEGEGLWPGGGSRRNFLCPACRHVHGYSAPDVQLVLPHTDPRRAGSSYNVVYMRLQCWVQGCSSILRIRTLMPFDKRPHEQALAMLVSSQAHAIACNNGHILSGPIFPYGLAFDARFDEDWEIGEGWNRRTPARICA
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