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 Ga0207650_10000374

Scaffold Ga0207650_10000374


Overview

Basic Information
Taxon OID3300025925 Open in IMG/M
Scaffold IDGa0207650_10000374 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS S6-3 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)42233
Total Scaffold Genes42 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)28 (66.67%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Soil → Unclassified → Switchgrass 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?
F002239Metagenome / Metatranscriptome579Y
F022439Metagenome214Y
F023898Metagenome208Y

Sequences

Protein IDFamilyRBSSequence
Ga0207650_1000037418F022439AGGMRTLKIAVLVVLMSFVGHAQERSDADATYALKGPVHTFKVEVATFVSKDGSYVEGPRVAQMEATFNQDGNRTDLLMYDDRGAVVRRIVMKFDGLKMTEALNYDGLGKMWLRIVNVYDEQSRIKEELTYHGDGSLRTKKTFKRDELGHAIETNEYNTQGVLLDQFKNDFDGPLLLTTVRKVYRENGSLASTSFYEPEKRRTETTNYNPDGSVANKTVRTAQQLETYGPDGSLQKTGTISVQNRLVDAVVLNQDGSRTKESNAPDQLDAHGNWTKMTRWQTDSQGTRPLTVAYRTLTYY
Ga0207650_1000037419F023898AGGAGMILSFKQIAAAVVLGICAVSTSGVMAQQTPVSAVRVIRYQGDFAMALANMSGTFGVTIGLELDTQRYRTVTVSLDDATVMDIVNAIVQSSKKYQWQQTGGFIDVWPIAGSNPLLETKINSFNVKDLSPSEAFDRLLNLPEVQQNMTALNLKRRAPDVAPEKLSSAKFSVNLEGVSLREALNKIAQESHIGIWIFRNYPNGFFSISSLER
Ga0207650_1000037431F002239N/AMDFEARCEMLGGMWKYILASILLVIGILEIVLALNEGLRDALMQTSPVRFKHAESSAFLLAGISALVMGIGILFFGSFW
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