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 Ga0132258_10016540

Scaffold Ga0132258_10016540


Overview

Basic Information
Taxon OID3300015371 Open in IMG/M
Scaffold IDGa0132258_10016540 Open in IMG/M
Source Dataset NameCombined assembly of cpr5 and col0 rhizosphere and soil
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)15861
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (80.95%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Unclassified → Unclassified → Arabidopsis Rhizosphere → Arabidopsis Rhizosphere Microbial Communities From The University Of North Carolina

Source Dataset Sampling Location
Location NameUniversity of North Carolina
CoordinatesLat. (o)35.9Long. (o)-79.05Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001596Metagenome / Metatranscriptome666Y
F017965Metagenome / Metatranscriptome237Y
F020070Metagenome226Y

Sequences

Protein IDFamilyRBSSequence
Ga0132258_1001654019F020070GGALKSDDLTPQRIPVRIIESHSQNGNRTLDKRSVEIRGTDGRVEPYQDIEKETLQVDATMVRATTRTFGKDANGRKALVQVTEEEKHTLPGDDSNVVRVTYNPDVNGRLQPVQREIVETKKIGKDLEETNTTVMLPNVNGGLAPVFKTQEIRKRAANDTVETEKTTWLSDINGNWQVNEVSHVTTRQEGTNRTTEERVSRLDFEGKLGEVSRVVSQESESTSGEKRNVVEAYSIDVPGTTRDGRLHVVERKTTTESSSSTGERAREQKVEQTNPGDPHSGLRVTVLVDGRMVPGPSGEQSTVTIRARDSNGKLGIVSVDTTKSDQIPTIRIQQAPAERP*
Ga0132258_100165406F001596GAGGMMSWFHSCIAGFDARSHASPVEILACFQDQRNVLGRLAFLITGDQATANQAVVQACETTLQGNGPFRDWLLEWAKAATIASAISHAAEAIRICEADYKDQRCPHAEHLSPGDDEERAANLALILGSDAQTLISELDPLCRAVLVLRVAIRSSIQDCALRLNVPRAAVLAANCHVLMWLHERYIKRVDENCDALHAL*
Ga0132258_100165408F017965GGAMSEKIGHRDALYLFACHLEWLTKRNLAAYDELLAALGDHDREIRSLAGVLLQRTSPGLCELKQN*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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