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 Ga0207676_10000002

Scaffold Ga0207676_10000002


Overview

Basic Information
Taxon OID3300026095 Open in IMG/M
Scaffold IDGa0207676_10000002 Open in IMG/M
Source Dataset NameSwitchgrass rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS Switchgrass S7-2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1198607
Total Scaffold Genes1098 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)630 (57.38%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Epiphytes → 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?
F001605Metagenome / Metatranscriptome664Y
F003710Metagenome / Metatranscriptome473Y
F004159Metagenome / Metatranscriptome450Y
F008503Metagenome332Y
F105781Metagenome100Y

Sequences

Protein IDFamilyRBSSequence
Ga0207676_10000002223F001605N/AMSAPVLPEPQSLSQVPQKVLEEVIRQLRSTRNDIIRFGVWNIRNLSDEDFNRTDDRKLFGYFRQDLLETRFLSKGRRIDIIQLWKWFDNEMSAVEPMLIDGEEVFVNIQDKDLEKVRKRIAEIESFLPTLRGDDLEAFKRAKYKLRRTVMRLTYDLHHLFKRLEKYRKNFFMGGAARPERVTLEAVAEIPEPPQIDEHDEE
Ga0207676_10000002772F008503GGAMKKALIVVAAIALVVWVISWFRNEDAVTKSVAKPWPGGTLESADHLPSLHANEASRRLRALGNALPKNDAIGDFVAREIARGTLTIGNPPPLPDVSAIRDLLLREPVVWERQEGIGGDNDTQTTRALQLTVARALVASALAKARANDATAWDDLHAVWKLAGSLDGHPQVMVQTAALSMARMINGAAWKLPLPAPAWFNEVQQCDSVRPLLEAFRFQTASYSKDGLRIFPTMMLAQSVDKDRGIAEELVRETRCDVKARANDLGVDLTSVWRRAFRYRAEREATANALRVREGKPIEPASRCSDGAWSFDGTTLRFSREIATAAPDRPMPLVLRVKS
Ga0207676_10000002973F004159AGGAGMATNNQDDHERAAAGLDFDNPIREKAASLGQTVAENGPEALLEEIENLLPESWREQITTFPIAAVIIGVGVGVFLGMKKGDEIIAAGSSMISAAAIANVTSAMEKMGGMSGD
Ga0207676_1000000298F003710N/AMAIIMSHPMTAQEMRVLQEFRRVAAETLPVAAINAIKHPAGGGEAPAASLVSKGYLTGDSGGYALTEKGKEFLALDVKPEFEEAGSAEDAAE
Ga0207676_10000002989F105781GAGMERQAPSPVELLNDRRGRLSLHVVVFPLVLLLFGCPKAEPLTAQKAEEILRAYEVSTEPIYAEVPQRVWWSPKAPQDAYDVKALETLRNLERAGYLTVTESHDGDTTSYTGKVTQKGFTLIGTAPSNRGPCFRATICFKKIDGLRNFERHPNEPTTGHGDLVWHYERPTPMYELFTTKINKELQKPYASAVSFFWKDHAWHFDVMVRKSPV

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