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_10000007

Scaffold Ga0207684_10000007


Overview

Basic Information
Taxon OID3300025910 Open in IMG/M
Scaffold IDGa0207684_10000007 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)612969
Total Scaffold Genes677 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)480 (70.90%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)6 (85.71%)
Associated Families7

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

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?
F006566Metagenome / Metatranscriptome370Y
F006645Metagenome368Y
F012839Metagenome / Metatranscriptome277Y
F014330Metagenome264Y
F020969Metagenome / Metatranscriptome221Y
F028129Metagenome192N
F073936Metagenome120Y

Sequences

Protein IDFamilyRBSSequence
Ga0207684_10000007127F012839AGGAGMAIAHTSMHQVGPHTWTFEAPAVPVAPMKANCRACRQSVAILRPSAMDLKTGNYVVRGECERCGAEVLLIVS
Ga0207684_10000007142F073936GAGMTGRPLFSMLIFAGIVVAVMWFFVLPALTTFKPTLP
Ga0207684_1000000715F014330GGAGGMAVVHEHEDGDGSSAAVVAIFLIALIVILAIFFYGFAFAHWFGVGNPTIVVPNTSSAPSIAASASASASASP
Ga0207684_1000000721F028129GAGMHQPGNILSLRFDAPAVAHTSRTPAQLTFCYQCHSAVDLGATTTALRSGHWARIGTCAHCGTTITRILKAS
Ga0207684_10000007348F020969GGAGGMSLSKILLILALICFILEALSGRIKMKFGFGLLAAGLAFLTASYLF
Ga0207684_1000000752F006645N/AMLIWGLLLCLAGWVLLRIAVRAGRRAALFSSAFWLTFLEFARYRIRRLWPAGFGLVGLILLIWGLIFLFRWLLAYYNARLGHPLS
Ga0207684_10000007627F006566GGAMVDTQVAQSGWFDWLQQETSFVPERAEDLVVTSVRVLQLNGRFLYLKATTDLGQFSAGERRILEALTHQGDTVFVAVSPDPGHIRLSYRMPDLENAVAFDADGLRGLIRQWAIWASATESSSE

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