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_10000004

Scaffold Ga0209274_10000004


Overview

Basic Information
Taxon OID3300027853 Open in IMG/M
Scaffold IDGa0209274_10000004 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)317487
Total Scaffold Genes301 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)207 (68.77%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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?
F000579Metagenome / Metatranscriptome1011Y
F002270Metagenome / Metatranscriptome576Y
F007711Metagenome / Metatranscriptome346Y
F022467Metagenome / Metatranscriptome214Y

Sequences

Protein IDFamilyRBSSequence
Ga0209274_10000004117F022467GGAMKDYSSHFRELVELQLPDDSRILMPRGGQDMMILASWRLSTDAFRASKRSRMIRILISEEAISNYARGSDGERLAGDVRFVAWLKRQLSAFDPDHDSPLGVEPPAVTWPVSTLELNG
Ga0209274_10000004134F000579N/AMAPDNAATISVIDYRRRSMVLQWHALGGTWTASDNPHAPVHGIALIRVSQPNICVFGQAGRLRLQVGPNQYALSENSPRISCTRGLASFGFRRRFAVESSAGGVLYSYSYWTNQRHDFFRWLAIKAEDPDWRVASGRQWSEGLAAAVLRAA
Ga0209274_10000004248F007711AGGAGMNTQISTKLAALAVALMMNSVIIGGVAYLFNSQLHQHAAISSLVQSAAPASTDAA
Ga0209274_1000000461F002270GAGGMSELKNQPRYTGVDRRAPRVEPGALKPGAAQREIYKTGGRHGAITNTLYNWHSYKNWAEKIRGSWEEKK

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