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 Ga0137365_10020385

Scaffold Ga0137365_10020385


Overview

Basic Information
Taxon OID3300012201 Open in IMG/M
Scaffold IDGa0137365_10020385 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from Sagehorn Ranch, Mendocino, California, USA - Sage1_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)5163
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (45.45%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria(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?
F000461Metagenome / Metatranscriptome1108Y
F000788Metagenome / Metatranscriptome891Y
F005602Metagenome / Metatranscriptome395Y

Sequences

Protein IDFamilyRBSSequence
Ga0137365_100203851F005602GAGGMVNVFIGFALLLIILIAAAFLAYYFFPAAFPVFWRQANVPNQGVIKRDWVATGRIDFATSITKVTSNPEDYDQPAEFKLLVEERRIVESLAGNENLEVQWRLATLREAKAVVTQYHKYLSDHSLIKTVS
Ga0137365_1002038510F000461GAGGMGNLLFWLGIGAAQKGAGSKPIKHRHWVASLVVGILIAVLIAVGMFFLLVSQQ*
Ga0137365_100203855F000788N/AVQDFTETARRLARLNQHFRQASFAEFEMLMAFDDGVLKRYGLPKPMVERALIEVYQTVVLDQQR*
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