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 Ga0137377_10005655

Scaffold Ga0137377_10005655


Overview

Basic Information
Taxon OID3300012211 Open in IMG/M
Scaffold IDGa0137377_10005655 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from Sagehorn Ranch, Mendocino, California, USA - Sage2_L_40_16 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10048
Total Scaffold Genes32 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)20 (62.50%)
Novel Protein Genes8 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)7 (87.50%)
Associated Families1

Taxonomy
All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)39.5673Long. (o)-123.4758Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004601Metagenome / Metatranscriptome431Y

Sequences

Protein IDFamilyRBSSequence
Ga0137377_1000565510F004601GAGGMLVGLRVHVSPLGETADVSATVPVNPLTGATVIVEVAVPPDAMVTLVGLAVTEKS*
Ga0137377_1000565514F004601GAGGMLVGLRVQLRPVDGETATVRATVPVNPLTGATVMVEVAVPPTNVLAVVGLAVTVKSVTV*
Ga0137377_1000565515F004601GAGGMLVGLRVHVKPAGETALVSATVPVNPLTGATVTVEVPATPALTVTLVGDAVTVKSLTV*
Ga0137377_1000565516F004601GAGGMLLGVRVHVNPAGDTELASATVPVNPLTGATVIVEVAAVPTFVATAVGLAVTVKSWIVNVTVAV*
Ga0137377_1000565519F004601GAGMLVGLRVQVNPDGDTEDVRATVPVNPWRGATVTVDVAVAPASALTLVGLAVTVKSLTVTVTVAE*
Ga0137377_1000565524F004601GAGMLVGERVQVRPAGETEEVRATVPVNPFTGATVMVDVAATPTLTLAVVGLAVTLKSWTTYDTVAL*
Ga0137377_1000565526F004601AGAAGMLVGARVQVNPAGETELVSATVPVKPFTGATVIVEVAAVPAVVVTEVGPAVTVKSTIL*
Ga0137377_1000565528F004601N/AVQVRPVGVTEEVRATVPVNPFTGATVIVEVAATPALAATLVGLAVTLKSVMLTVTVAE*
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