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 SwRhRL2b_contig_198774

Scaffold SwRhRL2b_contig_198774


Overview

Basic Information
Taxon OID2162886007 Open in IMG/M
Scaffold IDSwRhRL2b_contig_198774 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere bacterial communities from Rose Lake, Michigan, USA - RL2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusDraft

Scaffold Components
Scaffold Length (bps)4114
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → 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?
F033848Metagenome176Y
F053644Metagenome141Y

Sequences

Protein IDFamilyRBSSequence
SwRhRL2b_0339.00002620F053644GAGMKGLRIYLCKRTNPLGGGLIFYSQRAGGPCYRWRYEELRGEWLFSRMHAAELTVTELVSAPWKDIPALLKTTLDQHYLE
SwRhRL2b_0339.00002640F033848AGGAGMKTFYAMRRANGDWYAVGDKGNLQVPIFKSRDDAMTAHSRDSGMECFRPVTFDVRALEEVRRTDGNTASFLMISDPLRHLKHGLRLGFTELAPLLVDSTERHIRI

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