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 Ga0164305_10042088

Scaffold Ga0164305_10042088


Overview

Basic Information
Taxon OID3300012989 Open in IMG/M
Scaffold IDGa0164305_10042088 Open in IMG/M
Source Dataset NameSoil microbial communities amended with pyrogenic organic matter from upstate New York, USA - Whitman soil sample_237_MG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2606
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium(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?
F004510Metagenome / Metatranscriptome435Y
F020244Metagenome / Metatranscriptome225Y
F027637Metagenome / Metatranscriptome194Y
F046611Metagenome / Metatranscriptome151N

Sequences

Protein IDFamilyRBSSequence
Ga0164305_100420881F046611GAGMTMTSASPSLGADGVQFTPEVIEEIKDLVAQGISRDEIASRLGVSVGYLQVTCLRLGISLRRIILPNGSGRHTADVMIAHVREQKEVPQPTAPATPLAPTTAVPTAPGVIEVAFTTGARLRICGPVDASTLAAVMQALSDCGKTAQGERQIDEAVPSGTPPSP*
Ga0164305_100420882F020244N/AMKKLTMAQLFAAPKRVRDTQDWFERAKLVIVAARDRAVETTAQQRAVPSMKRPPTVVHRRRLAERLSANS*
Ga0164305_100420884F004510GGAGGMITWALIASAVIALVLVVLVQGKWTSRDSWFAAVFASAVMAMVIDHYINHIN*
Ga0164305_100420885F027637N/AANGHIAELKVRIVRQRAIVKYALDMGEHSEMAESLLDALEGSLSLFEKHRIFLLTCIGSFSALPAGDAATGRSWSRRNGHGAS*
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