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 Ga0207646_10000124

Scaffold Ga0207646_10000124


Overview

Basic Information
Taxon OID3300025922 Open in IMG/M
Scaffold IDGa0207646_10000124 Open in IMG/M
Source Dataset NameCorn, switchgrass and miscanthus rhizosphere microbial communities from Kellogg Biological Station, Michigan, USA - KBS K5-50-2 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)104800
Total Scaffold Genes103 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)70 (67.96%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

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?
F004660Metagenome429Y
F005646Metagenome / Metatranscriptome394Y
F011179Metagenome294Y
F020419Metagenome / Metatranscriptome224N
F023491Metagenome210Y

Sequences

Protein IDFamilyRBSSequence
Ga0207646_1000012421F011179N/AMSEAPEERSAEDELRLAFGRAIGFTVAALLLLLGGGLLLIVLAAFFFRFMFGG
Ga0207646_1000012434F020419AGGCGGMARSQAGDGRRVDWFAAGLGLVLAVVIQLVGGTLLFGSHRGQLLSQGLLTFGALLAGGVLAGFIGPAGGAVWNGVVVAVGFIIVEELAGAVGPVGPLGSAGLDTVGLVIDDVLVLSGGTIGGVVAGVARRRNPG
Ga0207646_1000012445F005646N/AMSRAFVKEGDSTTSGSLVDRFYQGLLELSDPARALIAKRQQQAWIESQAQVEAARQQALNALGADSYRETFETAADRAGAPPQSLTWWAVGDAATALAARRSLNADQFALLVGPLGVALPFLKDAAVSDIQRAGVSP
Ga0207646_100001246F023491AGCAGMDAEDTEKQNKIRELQAVVAKGLKGINECRYQTECEFARACPGTC
Ga0207646_1000012493F004660N/AMAMAEQVNLEQASDDELARRVREIMAEMTPLEEALGRLRAQIQQVVSEQKKRERSQHLKARLQVRTTVAQGQMPTLQQVAESSNDLVPPDASLAGLRSFRDSGTEIGLGYATGREPTVWMTNGSSTAAVKTVAEIRSRYLEGWDFGTAAHPGVRIHIPNSRTEKILQASEVFVRLRGDD
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