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_1000161

Scaffold Ga0209588_1000161


Overview

Basic Information
Taxon OID3300027671 Open in IMG/M
Scaffold IDGa0209588_1000161 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)19271
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (83.33%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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?
F005976Metagenome384Y
F014247Metagenome264Y
F024764Metagenome / Metatranscriptome204Y
F035699Metagenome / Metatranscriptome171N
F085527Metagenome / Metatranscriptome111N

Sequences

Protein IDFamilyRBSSequence
Ga0209588_100016113F085527GAGGMVLIVILMSAIIYVWVVPAFTSQASQDNAGAAYSEKFETVRAQFANNAVSSPEPVAACGSQDGSVGCSPGSYLTCNGSIISPYSGNVVVPVNGVCLITSTVNGNVYVYTGANLTVIGGTINGGLEVDTALVVTLTNAHVSGFTGLYNVQTVNISGSALNTSGSTSVTTDSCCAALYAGGRGYFSMTNTNVTGQVENEVGHNTIVNNNHVSGRLEIESADLGQIINNVVGSLDLDANGTIVIAGNTVTGATGCPANPIAGKSVCYGSNAWCGTGNNQIPSGQTNGNCVGNVEVDVRNTGSIPVKFLQVYMTNIPLAAGLSWQLASGNPTQCGSGQSATCTLLPIIIPVGDMAEITMGWTAPSGSFPLPWNYIYFIFVSSHQNYVDGYLYFQQGLGMPLQSRLEQRTCPPCY
Ga0209588_100016114F014247N/ALFWSGLWIYTVATGLASMIFMAWAFYVETTGRGALFIEPNRVLAAGELATVATGMIALLVLFFRGLSQREQALTESLQE
Ga0209588_100016115F005976GAGLMAGGLILAVSVLLVNSEIAASIFGFALGSLNVLIGVLTARAVGIAIPADQAGRVNLSIDKGVIRTNIYAIGFSEKKMVLRRLSSAKLTVVAALILAVLGAVVAGYFGIIVGGITAFSLQEFVTQRRRDEVRRENILDSSADSDLEFSYDEIEHLQLLGNRIRIYLKDRVVRIAISRRSARILGPMLEKIIPAKILSGPVPSGKDP
Ga0209588_10001617F035699GGAGGMLFFSPQTPLGMPKKNGIPKSLLADIKSVKTRLSGLERPKAILSDIGSLKTRLGSLEKAHTSINKELKSISDALKRQESTIAQLGKKPAKKEKRKPSEYNLFLKDKMSAGMSMIDAVKAWKEKEGGASSSSVKQPGQDWQSPSQQY
Ga0209588_10001618F024764GAGMTRENIARFGTKAVRYIIVLVVLIVIAGSATYAVMSDTSIHGLTVRFYNNVSRYCTNSTLTFNFNQVVVYSKTSLETSLSHVHFTMSADGVLVGTVSAQDSKFGPGQSVSYYSLTFTNATLDPHSQPLKSQIALGITALVSAGLYSSTTTASDSELVTFSGPPC
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