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 Ga0210396_10000039

Scaffold Ga0210396_10000039


Overview

Basic Information
Taxon OID3300021180 Open in IMG/M
Scaffold IDGa0210396_10000039 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-H-17-O
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)290780
Total Scaffold Genes278 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)222 (79.86%)
Novel Protein Genes8 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (50.00%)
Associated Families8

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Forest Soil Microbial Communities From Barre Woods Harvard Forest Lter Site, Petersham, Massachusetts, United States

Source Dataset Sampling Location
Location NameUSA: Massachusetts
CoordinatesLat. (o)42.481016Long. (o)-72.178343Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000138Metagenome / Metatranscriptome1954Y
F001432Metagenome / Metatranscriptome696Y
F003015Metagenome / Metatranscriptome513Y
F007700Metagenome / Metatranscriptome346Y
F011236Metagenome / Metatranscriptome293Y
F014188Metagenome / Metatranscriptome265Y
F071459Metagenome / Metatranscriptome122Y
F101277Metagenome102Y

Sequences

Protein IDFamilyRBSSequence
Ga0210396_10000039103F101277GGAGGMITNPVQSSPAVQNEAAAKAPPRQNTAPQPASVPQDKVTISPQAQAHAQQTASADKDHDGDSK
Ga0210396_10000039135F011236N/AMDGLSQLHAPLRAPRINLADFTPAVLRFQDGQRASGKLQVLSVNGGLLSLPSPIDQGSQVKVMFLTHAGTVLGAAEMLSPLTSTQQPFRFVSLPVDDRRRLGAAIQSSLNLNSANADAAEQKWMDKLRAASSSENRPRGRLFKVAAGAVALGILGLGCAFYLFQVQILK
Ga0210396_10000039253F001432GGAGGMLKKDYVRDGNRRIIGSVTTGYSDTSKTVRDDQNQIAGRTNERFGTTRDADGRLVSINSADPGLLIRKK
Ga0210396_10000039269F007700N/AMPAPNLGLPTAWVVKCKKCGCTINCRAIDPQIEHSQPDNADPPPHDSVIVTCSCCWAAYRYSPAEIFKGAPGPSSNCYDRKKLNNQEERKPNEVLLIAASLIAAVRLNREEIKSSPVVHSKIADSIRLAEMIQARLRG
Ga0210396_1000003930F003015AGGAGGMDRNMNRNTDCTKSLVAVAAFLLMGLGVVAQQASTAPAASGSSVPVDNLSTVRGCLNGQRGNYIVIEDKTGLVYVLKGVGNKLNGQLHRQVEVKGRILSGTIKTGINPAKAGSNPSDTTHGVDGVPLQVANPETDIRTISKKCKAADQQ
Ga0210396_1000003949F000138AGGAGMHMQSINSHSIPIFSLVNYIPLVATVVTCVLSVILARATLRYAEATDKSLALAREEFEREWSPELHIKLERLSASETRIVVTNLAKISVLLQLMQLRKISHAVPFERCFLNDPLVGGMTWTQDVGKRLVVCTGPDFQGLIAASVTFYSSGRMFRTDWFRFYIEVDDGRIVRLNPTNVPARRVRVLENRKGPERRREMAQDVTAGVAASKHAAT
Ga0210396_1000003952F071459N/AMNSSALFAWYALVELPLPKFVAVESAALVILAAGLLVFRTFRERYLLVWILGWLAYFVSSWTIHHPGVDPNSRYTVAVSQSQFVLALCLFSAAVFVYSHARKVLTPLLAFSVAVVAYAAVRALWWPDSFALRVVLEVSYRVITFGAALQLIRFR
Ga0210396_1000003970F014188N/AVIPVQDGYPFIRYNLFIVNINTLSPSQHSVELHEVCDQLQRMGYAQFKRIRIYGQEFEAMSDPFPNGDGIAIRAFSKRETHERTLQLPLPVVQMVKRQKRKKVA
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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