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 Ga0207700_10008690

Scaffold Ga0207700_10008690


Overview

Basic Information
Taxon OID3300025928 Open in IMG/M
Scaffold IDGa0207700_10008690 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - LAR L8-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6308
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (94.12%)
Novel Protein Genes8 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)8 (100.00%)
Associated Families7

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Candidatus Angelobacter → unclassified Candidatus Angelobacter → Candidatus Angelobacter sp. Gp1-AA117(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Agricultural Soil → Corn, Switchgrass And Miscanthus Rhizosphere → Corn, Switchgrass And Miscanthus Rhizosphere Microbial Communities From Kellogg Biological Station, Michigan, Usa

Source Dataset Sampling Location
Location NameUSA: Michigan: Kellogg Biological Station
CoordinatesLat. (o)42.4774Long. (o)-85.451Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F011259Metagenome / Metatranscriptome293Y
F011803Metagenome / Metatranscriptome287Y
F023966Metagenome / Metatranscriptome208Y
F037883Metagenome / Metatranscriptome167Y
F044745Metagenome / Metatranscriptome154Y
F070583Metagenome / Metatranscriptome123Y
F081702Metagenome / Metatranscriptome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0207700_1000869011F011803AGGAGMNDQNRILVRRGARELTPTETDLINGGFRTLSFCTSSPSPDGDQHVGEVGC
Ga0207700_1000869012F044745AGGAGMNDQNRVLARKGARDLNEQEVAMVSGGLRTLTACTLAAAGTLDGDTFHSECGSPDL
Ga0207700_1000869015F023966AGGAGGMDTDNRVLTRRGARELSEQEVQTVTGAFKVSRTLTPCFVDSKQQFLNGDQSIGECGP
Ga0207700_100086902F037883AGGAGMSNQTELNRVLLRMGARLLTEEEVESVSAAGPPCQLTFTHLPKGGSDEDTFCP
Ga0207700_100086903F011259AGGAGMSRQEENRVLVRKGARELTMDEIDQVSAAIQNHTNVCTAAMPFATVTGSGDGDGCSDTDKDSNFI
Ga0207700_100086905F070583AGGAGMNDQNRVLIRKGARELDREETQRVSGGLRTLTACTFDPDLGGRDGDVSLGEC
Ga0207700_100086906F081702AGGAGMNDQTRVLIRQGSRELSPEEVEQVGGGFNTLSITFGPNGRDGDGLVGES
Ga0207700_100086909F011803AGGAGMNNQNRVLIRRGARELTPTESEIVNGGFATFSLCTNSPSPDGDQHVGEFGC
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