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 Ga0308175_100006821

Scaffold Ga0308175_100006821


Overview

Basic Information
Taxon OID3300031938 Open in IMG/M
Scaffold IDGa0308175_100006821 Open in IMG/M
Source Dataset NameSoil microbial communities from UC Gill Tract Community Farm, Albany, California, United States - DLSLS.C.R1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8260
Total Scaffold Genes15 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (93.33%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Agricultural → Soil → Leaf Surface Microbial Communities From Various Plants In Uc Gill Tract Community Farm, Albany, California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)37.8864Long. (o)-122.2981Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000399Metagenome / Metatranscriptome1182Y
F024896Metagenome / Metatranscriptome204Y
F045918Metagenome / Metatranscriptome152Y
F084195Metagenome / Metatranscriptome112N
F105763Metagenome / Metatranscriptome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0308175_10000682111F105763AGGVGSFVWHVRQGSLEGPELASAYRYRPFSVDEPHIGADDVFIEGDGPWRVIDFQRTDQLESDGNVLVVERASAI
Ga0308175_10000682112F084195GAGMSAEYDVARQQRLRRALEAIADAYGFTGELRRERIGEWWLYPNSIGHDREQEIAHEHGLEVKFGKERVDEFRKLVAEAQRNGS
Ga0308175_1000068216F045918GGAMAGSAWRSILMCMEEPEQALSPAKLDLADEVDWTQVWRLDQFLALGFDVVRASFMANDAGVDLAQARKLVALGCPLETASRILL
Ga0308175_1000068217F000399AGGGGGMAGTVHGSLVQQFASMKPNEFGPAIEPKWQLGGRLIKQVQTAVEKQELPPLDGARVISSITATLFGYDEFILREVSAESLLASTPPRR
Ga0308175_1000068219F024896AGGAGMKKLLPLAIVALMIPSVALAKGKPPTAGTHTNHGKANVMYVLKGMIYAYTPYDSSTQTNGSITIDVKSSNRHGKLLNGQTGVLITVGPNTKIELRNGVTTIAAAQPGDLGTVKVRAPRLAFKTATLPEVQTALQNHAAHMVTDWGPAS
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