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 Ga0209588_1005128

Scaffold Ga0209588_1005128


Overview

Basic Information
Taxon OID3300027671 Open in IMG/M
Scaffold IDGa0209588_1005128 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - Rivendell_Oct2014_Saprolite_2_DNA_Rhizosphere_1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3736
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

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?
F003181Metagenome / Metatranscriptome502Y
F025944Metagenome / Metatranscriptome199Y
F032969Metagenome178Y

Sequences

Protein IDFamilyRBSSequence
Ga0209588_10051281F003181GAGVKLDQGSTGELRVLDSGYTDQVLLDTISEEVLRIKATVCNSLQDLNKLYMVDRALYTNTPGLPFYMEFTPQNMKSIKTPLIISEVKLYTVERVWGMRTLRITR
Ga0209588_10051283F025944N/AMPTYVKIIVLAQAATILSLTLVMYQVYLNDVSFQQYVISLFQSNIIADASLSIVTASVFALGTFTLLGSMGTRRASKEWSRLSEEAKAPPMPSLLVLETVEQPLKRRRAQAVNPVRRKPRADVDKLYDSMRYFADDKGRE
Ga0209588_10051285F032969AGGAMSHIPRNLYPNSQGAESKKSSRPDPKVVQASSPQLFRCPRCSALSFRVLFRDRDVAGICSECNLQLRADRRIGRATREYYAEFNRQVGAGDSERIERIFLKMNSVSEAKRVYPVVRRLGYRTKQSSPMLHARLVMVETTRDRALVLIEKLRERGLQVAMQDNSKLRPEDVLPAGSIRKP
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