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 Ga0207684_10002447

Scaffold Ga0207684_10002447


Overview

Basic Information
Taxon OID3300025910 Open in IMG/M
Scaffold IDGa0207684_10002447 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-1 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)18730
Total Scaffold Genes29 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)23 (79.31%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(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)42.3948Long. (o)-85.3738Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F044521Metagenome154Y
F063422Metagenome129Y
F071693Metagenome / Metatranscriptome122Y
F078369Metagenome / Metatranscriptome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0207684_1000244713F044521AGGAGVGQGLQSSTWWEEADYKQLGTVNDRALFILDKLIKRDITKFQAAWAVAFPGRLIHEPHQLQPEQVTRGPWLVILTRMGATREETTDILERVGRRW
Ga0207684_1000244718F071693AGGMLSRAQEARVRDVLANHPRGTIQTYCLEHLAAAVKIPPGHLADLAVFVRSLREHGACQTRYGGTCDADAHETERVLIWGPPTPMSAEPNTGGGHAA
Ga0207684_1000244726F063422GGAGMPLNLDAWWNEPEYKVCGTFRTRGYFILRKLHELDPARVLAVTAKLYREEEKEPQDISKGEWKVILEHLGASPKEVRDVQVKMGKWQ
Ga0207684_1000244727F044521AGGAGVEPGLGSSTWWDEAEYRQLGTVNDRALFILGKLIKRDTPKFQAAWGVAFPGRLVYEPRQIQPEEVTRGPWLVILTRMGATREETTDILERVGRRW
Ga0207684_100024475F078369AGGAGMPRLLQVAPDGGGRYIAVDRDGQIWRGEAKRSKLDGTEVIAWKPMPSEFPSGA
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