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 Ga0137368_10207537

Scaffold Ga0137368_10207537


Overview

Basic Information
Taxon OID3300012358 Open in IMG/M
Scaffold IDGa0137368_10207537 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from Sagehorn Ranch, Mendocino, California, USA - Sage1_L_100_16 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1388
Total Scaffold Genes2 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Novel Protein Genes1 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (100.00%)
Associated Families1

Taxonomy
All Organisms → cellular organisms → Bacteria → Nitrospirae(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?
F046941Metagenome150N

Sequences

Protein IDFamilyRBSSequence
Ga0137368_102075371F046941GGAGGMKIRVVVVSLAVLLSQWACATSSNRITEYLSGFQLPPDGAQPVALPLTAGLVMVLPEDELGKPTTPSREMLQAVAERLQKEIQTSSNLVIQRVFPSITIPARGLHGLDLERLQSLTREGSLTRMLVVVATSRSASKLRFWPIMENQLYVRMDAALVEVPTGRVLTTESGEDDYVMAEALDYVERISYPRLYYRNFTFGGPFTIVNGDTYKALGEQTFRGAAAQLGMKLRHCLDPERAGASRSRSSMAGF*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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