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 Ga0099828_10000309

Scaffold Ga0099828_10000309


Overview

Basic Information
Taxon OID3300009089 Open in IMG/M
Scaffold IDGa0099828_10000309 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con2H1.8 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)28977
Total Scaffold Genes28 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (57.14%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Archaea(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: California, Eel River Critical Zone Observatory
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006617Metagenome / Metatranscriptome368N
F008019Metagenome340Y
F010240Metagenome / Metatranscriptome306Y
F012566Metagenome / Metatranscriptome279Y

Sequences

Protein IDFamilyRBSSequence
Ga0099828_1000030919F010240GAGMRVDYRNETRMQTGSKLFGVRSLPYRKLLATSLREHLSIYILASLSNAFLAASQYLAVYAAAASYLPVDFGTSALITGYGRGAGIVLALLLNSLVFQGILAVLVVTLALGATVKTGWTWVYAFSGVVISGFVGYWLAVEFLIILEWISTLQSNRVDSSDSYSGLFWFGLAASVCYVLMILVLRKSYGKLAETRLADKRSL*
Ga0099828_1000030921F006617N/AMRGEGRDEAANMVGAKPMLLWYVWIRLVDGAWHRLDEISKQLRLPSNAIEWAAKFLCDKGMAERGFEEDEIRLHQGNAKFEDAVRALSSSTKPSK*
Ga0099828_1000030922F008019GGALGVRKKITVSIVLIIIVALAVGQFTSPQLLPSVGGKYSAIGPYSNRGSWTIMETMRYGRAYLAISISNVTFPRTGIGTDYSLVISDVNQTIANSIVKGFGVRVTGMSIQDSLDGSTSTWGIGNAVSDGVQATSIFFFRTSTNHNLRFTVTFQLYDLLPLGSIPDQTVTTSFNITQTVL*
Ga0099828_1000030925F012566N/ALPSQNVARNFESENLSTEKNRDDNTICKQILDPDPAIRVAAFIEGAEVTGYAETARTKNVLSQSIDLRKRIGFWSSIVTEMARQTDELFGRTESVLITHKGLKMVTIPLSARRSLGLSLDRSADTEKIILKIMTKFDLRSND*

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