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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Sample 3300013054

3300013054: Enriched backyard soil microbial communities from Emeryville, California, USA - RNA 5th pass 30_C BE-Lig BY (Metagenome Metatranscriptome)



Overview

Basic Information
IMG/M Taxon OID3300013054 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0127392 | Gp0191767 | Ga0164284
Sample NameEnriched backyard soil microbial communities from Emeryville, California, USA - RNA 5th pass 30_C BE-Lig BY (Metagenome Metatranscriptome)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size38724163
Sequencing Scaffolds12
Novel Protein Genes12
Associated Families6

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available6
All Organisms → cellular organisms → Eukaryota3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rickettsiales → unclassified Rickettsiales → Rickettsiales bacterium1
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea → Hymenostomatida1
All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameLignin-Adapted Enriched Soil Microbial Communities From Emeryville, California, Usa
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Lignin-Adapted Enriched Soil Microbial Communities From Emeryville, California, Usa

Alternative Ecosystem Assignments
Environment Ontology (ENVO)Unclassified
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Soil (non-saline)

Location Information
LocationUSA: Emeryville, California
CoordinatesLat. (o)37.83Long. (o)-122.29Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003009Metagenome / Metatranscriptome513Y
F003289Metagenome / Metatranscriptome495Y
F005470Metagenome / Metatranscriptome399Y
F035602Metagenome / Metatranscriptome171Y
F065812Metagenome / Metatranscriptome127Y
F071833Metagenome / Metatranscriptome121Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0164284_104814Not Available507Open in IMG/M
Ga0164284_106357All Organisms → cellular organisms → Eukaryota648Open in IMG/M
Ga0164284_107422Not Available1556Open in IMG/M
Ga0164284_107430All Organisms → cellular organisms → Eukaryota655Open in IMG/M
Ga0164284_108886All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rickettsiales → unclassified Rickettsiales → Rickettsiales bacterium1584Open in IMG/M
Ga0164284_131368All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata → Oligohymenophorea → Hymenostomatida3007Open in IMG/M
Ga0164284_141638Not Available649Open in IMG/M
Ga0164284_142454Not Available751Open in IMG/M
Ga0164284_144055Not Available692Open in IMG/M
Ga0164284_144973All Organisms → cellular organisms → Eukaryota → Sar → Alveolata → Ciliophora → Intramacronucleata969Open in IMG/M
Ga0164284_147813All Organisms → cellular organisms → Eukaryota857Open in IMG/M
Ga0164284_158973Not Available593Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0164284_104814Ga0164284_1048142F065812LPIANKYCEGKVKRTLKRGLKDLKSLRRKQYKWIYV
Ga0164284_106357Ga0164284_1063571F065812LLLKLNIYGKPIANKYCEGNVKRTLKRGLKDLKSLRRKQ*
Ga0164284_107422Ga0164284_1074221F035602MMDISVTCEKWLASYPKFNWKSTFSFLQAPEVLKAIEFCDNGIACFVKGLQYEHDKDYHEALNCYENGAMQLDSLCLFRLHEIYSGDTNFGVEYNERQAMCHLAYSALLSQFETFDHKVTFWAKLEAFWKKDAAHKDYLMELLNNPPADYLQSTGPLFAKLFTFYNNKETFIDLLPELKALSIDVTKNKFFAILNAIFDFMAYTYNSGFSKTDLEKYVETILDMLTNDILFENFFQNYVAHLRIIRAKKKFAFLFQRRLETDCFWVWSFSFLASMKNHYLGLLLSFEETFLEGGLILKWKNTESWVNNFIAFCYEKGIGTRKNLAKAAQLYKKDIDQMPRVLYSRYRKVLVVKEKRAHGLQLSQEEENINVDEQAEDLKLKIEERLEDTTRMDCYLFYVYGKIYEKIDEDNDRAIEWYQKGVDVDTDSCLKNHLLCNEAWRLKCKKRLLKLQARKGLQVSIVNKNRED*
Ga0164284_107430Ga0164284_1074301F005470NLLNTDMSVKVRKEGQVITEFPTDMVPRSRLLTKLVEEFNSTEVDLEPAPGKDFSPATINKVKEFLEKFEKGLHKMPKKPLLIFVTYNDWLDNNFDEKTREWLEDFLKPKSFYDLVELFNAAFYLQIDDLREICAARIAHSIILERKAPEDFLRDFGVVTQYQDFFTPEEELKFIEKEFINKNDYEGVAAEDDEELNKE*
Ga0164284_108886Ga0164284_1088863F003009LAWYQRTYFNVNIGNLVKYFSILTVAFHDVHSLFGFFILLVVFSQLISGTMLSFSLVPESMMVPLVRDEEDLEDLYTDDFF*
Ga0164284_131368Ga0164284_1313681F003289M*GNIVTEVALQTNFGVGFNNTKSDVLIHLTQ*QY*W*FWFSFLWAFYYLVILRIVRFRTLKFRPRLATTFRPHGK*GDLIICLIPVS*CANIITNSTLILRMIE*QAETGLLTVRIRGKQ*Y*IYKFELKTFTDVLTVPKNIGNNKWWISTPGDLQVSDDYLHILQLRSQNK*V
Ga0164284_141638Ga0164284_1416381F071833RKLIEPFEKLSRESVECYNLQKGTKEANGEYATRVNKCLDSWQKHFESVEDHTNKYLSNLRAKEALHFSKLFHCSNAINEKDIEVCRREENQRFANELKETFSQL*
Ga0164284_142454Ga0164284_1424541F071833KKYIYTTSIMNFSSEFSQSQDPQQNINLVQILIKRKLIEPFEKLSRESVECYNLQKGTKEANGEYATRVNKCLDSWQKHFESVEDHTNKYLSNLRAKEALHFSKLFHCSNAINEKDIEVCRREENQRFANELKETFSQL*
Ga0164284_144055Ga0164284_1440551F071833FSAITNNPKENMNYFNEFTQDPQQNINNFHVLIKKKLIEPFEKLSQESVECYNLQKGAKEGPEQYTGRVNKCLDSWQKHFERVEDHTNKYLSNLRAKEALHFSKLFHCSNAINDPEVQACRKEENERFANELKDSFSKL*
Ga0164284_144973Ga0164284_1449731F003009FQRPYFNTNILNLIKYFATLTVSFHDIHSLFGFFILLVVVSQLVSGTMLSFSLVPEAMMVPLVRDEEDIEDLYTDDFF*
Ga0164284_147813Ga0164284_1478131F005470MSIKLRKEGQLITEFPNDMVPRSRLLTKLVEEFNSTEVDLEPAPGKDFSPATINKVKEFLQKFDKGLNKMPKKPLLIFVTYNDWLDNNFDEKLREWLEEFLKPKSFYDLVELFNAAFYLQIDDLREICAARIAHSIILERKAPEDFLRDFGIVTQYQDFFTPEEEAKFIEKEFINKNDFEGVAAEDEEELNKE*
Ga0164284_158973Ga0164284_1589731F071833FEKLSRENVECYNLEKGAKEGNGQYIERVNKCLDSWQRHFERVEEKTNKYLISLREKEAHHFSKLFHCTNAINEPEVQACRIEENERFANELKETFSQL*
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