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 Ga0065707_10003155

Scaffold Ga0065707_10003155


Overview

Basic Information
Taxon OID3300005295 Open in IMG/M
Scaffold IDGa0065707_10003155 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere bacterial communities from Rose Lake, Michigan, USA - RL3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusDraft

Scaffold Components
Scaffold Length (bps)4060
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Switchgrass Rhizosphere → Switchgrass Rhizosphere Microbial Communities From Michigan, Usa

Source Dataset Sampling Location
Location NameEast Lansing, MI
CoordinatesLat. (o)42.794771Long. (o)-84.393804Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F043570Metagenome156N
F061196Metagenome132Y

Sequences

Protein IDFamilyRBSSequence
Ga0065707_100031555F043570AGGAGMAKKIREFMTHRDPDEHIWVERDESAVIGTARMGQRMVPKIQPFDLLRSAPRSANCTRAMVWEGDSLRIATEHIDGVEEQLTRAADHDVVYFQFCGRSKIESECGVVDLEPGEMVLMPAAISHRSTGSEECLRLRVATRELVNLGVDPEKPIVETQFKVRPSEPFARDGNGRQESENGRTLEHITFWDPQSDVWIERDASALIGTVTSGSRPVKKIRGFDYFTGMTGKGGAKAPVLYHGKEFRIDVYNLEEEQRGFHRGCDEDEIWFQFRGHSLNHTEWGAMELDAGQTAMIPRGIAHRITGSPGFLRMVFYSRGLVQPKAFNNISERETRFEVQ*
Ga0065707_100031556F061196N/AVRNEARFPAFVSGSVDAAPLSPRDIAQVGPLKGHILADTTNEVQLVWNGVAVSSKLLSENPLLVERFLRAVAKGREFARLYKEPTLAMIAKHTPSPLDVLSLDYDTVLGSMTEAGWVTDDVLRDEIMTRGELIKVTKLPEAGQLFDYRIIKKVYTELKKSWKPKP*
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