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_100000416

Scaffold Ga0308175_100000416


Overview

Basic Information
Taxon OID3300031938 Open in IMG/M
Scaffold IDGa0308175_100000416 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)29650
Total Scaffold Genes35 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)23 (65.71%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

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?
F001513Metagenome / Metatranscriptome680Y
F005548Metagenome / Metatranscriptome397Y
F007088Metagenome / Metatranscriptome358Y
F015268Metagenome / Metatranscriptome256Y
F031949Metagenome / Metatranscriptome181Y

Sequences

Protein IDFamilyRBSSequence
Ga0308175_10000041622F007088GGAGMQLFLRDPTYTDRLAAFLTSVGRPAIVGAPDRVDLEENAEDANNLELELYLRVWRVLYPDADVELVEY
Ga0308175_10000041623F005548N/AVLGWLSSLFRRRRRDEATPIREADAYARSYGDRSGEIVSVARVEPKRIPRRTGDMTGELLRRAFETRLDSRGKATT
Ga0308175_10000041626F015268N/AVVGRIVWSVRQGRAGELDAPEIMGGFRSTNPVHEPKLGDVLRLPDGSGPWRVVDWVVGDRVDPSANVLVVEPAVG
Ga0308175_10000041629F001513AGAAGVLVRRLRQVVGGQVATETELRTLAEQADGWARATDAQLHAAEGRLTELNANAASPLTQIATEVRRVEALSRELKEARRLIDGLERRTRELRTAWLKHHADAGSPFGQTP
Ga0308175_1000004168F031949AGGAGMDPYLAMDSIAGLQPEQPVLHRGRRATFLHMRRGAAIIRYWGSSHAVSVPPDSLSLAPVSNAVRTRRPLAVRDEPLARDGAAGNAG
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