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 Ga0164301_10009438

Scaffold Ga0164301_10009438


Overview

Basic Information
Taxon OID3300012960 Open in IMG/M
Scaffold IDGa0164301_10009438 Open in IMG/M
Source Dataset NameUnamended control soil microbial communities from upstate New York, USA - Whitman soil sample_231_MG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3859
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Amended Soil Microbial Communities From New York, Usa To Study Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: Mt. Pleasant research farm, Cornell University, New York
CoordinatesLat. (o)42.4531Long. (o)-76.3842Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F016890Metagenome / Metatranscriptome244Y
F030272Metagenome / Metatranscriptome186Y

Sequences

Protein IDFamilyRBSSequence
Ga0164301_100094381F030272GAGVPQRSANIWASALKKEITVNKRTLYIAILALLCITTIFVFSQTSSQFPELDKNGRPLLPRPMPHLVYSPIDLAHTGVALPASVGGATPNTGIIRLGDATKMTVFASCTQNFDLVMNVYTADDQGQSNPNFTFYNSYIIATNMTSGAQQAFLATELAPTVTTGTLGAPVRLPQLAVSFFEKNQVAVAGTCTDRVIVGY
Ga0164301_100094382F016890N/AMARETYKQAYATAKLDLLQQLQKRDELDEKIRKLKQTVKALGELCDADPEEVDKLLLVEGFAIDAKPGFTDSIRRLFRIHQTALSPTDIREDLVKMGIGVGQVNLLSSIHSVLRRMAEAGEIEKTEDGAFQRRT*
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