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 3300025013

3300025013: Soil microbial communities from Rifle, Colorado, USA - Groundwater B2



Overview

Basic Information
IMG/M Taxon OID3300025013 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0053054 | Gp0054602 | Ga0209317
Sample NameSoil microbial communities from Rifle, Colorado, USA - Groundwater B2
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?Y
Use PolicyOpen

Dataset Contents
Total Genome Size360247615
Sequencing Scaffolds18
Novel Protein Genes18
Associated Families13

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes1
All Organisms → cellular organisms → Bacteria6
All Organisms → cellular organisms → Bacteria → Proteobacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfuromonadales → Geobacteraceae → Geobacter1
Not Available4
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium2

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameSoil Microbial Communities From Rifle, Colorado, Usa
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Freshwater → Groundwater → Unclassified → Soil → Soil Microbial Communities From Rifle, Colorado, Usa

Alternative Ecosystem Assignments
Environment Ontology (ENVO)freshwater biome → planetary subsurface zone → groundwater
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Subsurface (non-saline)

Location Information
LocationRifle, Colorado
CoordinatesLat. (o)39.53Long. (o)-107.78Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F016087Metagenome / Metatranscriptome250Y
F026037Metagenome / Metatranscriptome199Y
F027235Metagenome / Metatranscriptome195Y
F029738Metagenome187Y
F040940Metagenome161Y
F046176Metagenome151N
F047545Metagenome / Metatranscriptome149Y
F056711Metagenome / Metatranscriptome137Y
F069627Metagenome / Metatranscriptome123Y
F085179Metagenome / Metatranscriptome111Y
F087945Metagenome110N
F090572Metagenome / Metatranscriptome108Y
F096266Metagenome105Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0209317_1000064All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes149173Open in IMG/M
Ga0209317_1001509All Organisms → cellular organisms → Bacteria20025Open in IMG/M
Ga0209317_1003511All Organisms → cellular organisms → Bacteria → Proteobacteria9777Open in IMG/M
Ga0209317_1005655All Organisms → cellular organisms → Bacteria6801Open in IMG/M
Ga0209317_1009150All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfuromonadales → Geobacteraceae → Geobacter4665Open in IMG/M
Ga0209317_1010480All Organisms → cellular organisms → Bacteria4208Open in IMG/M
Ga0209317_1013236All Organisms → cellular organisms → Bacteria3521Open in IMG/M
Ga0209317_1016676All Organisms → cellular organisms → Bacteria2936Open in IMG/M
Ga0209317_1019808All Organisms → cellular organisms → Bacteria → Proteobacteria2562Open in IMG/M
Ga0209317_1023761Not Available2215Open in IMG/M
Ga0209317_1028711All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria1913Open in IMG/M
Ga0209317_1043267All Organisms → cellular organisms → Bacteria1391Open in IMG/M
Ga0209317_1052502Not Available1192Open in IMG/M
Ga0209317_1058245All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria1097Open in IMG/M
Ga0209317_1068930Not Available959Open in IMG/M
Ga0209317_1075655All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium888Open in IMG/M
Ga0209317_1117708All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium580Open in IMG/M
Ga0209317_1125954Not Available527Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0209317_1000064Ga0209317_100006429F029738MTYKNDPRMITAKFTSVCSKCGCSIKKGTQIYYWPSDRKAYCEKCGEGPYRQFRSDAADEDMMNGNGPCAY
Ga0209317_1001509Ga0209317_100150916F069627MDLTNEDAVPIYMKISEKVLHLRRLGMPYATIAERLKINLWMAKRAARWAKAIKP
Ga0209317_1003511Ga0209317_10035115F069627VDLTDEDAIPIYMRISDKVLHLRRLGVPYASIADRLGVNLWMAKRAARWGNIRQA
Ga0209317_1005655Ga0209317_10056555F056711MRKAFTALAAAAFALSIVAGGCAKDKSPSQIQPAKKGIAGTEKKAAPKPRAKLFTGTIEDLDEAAGTLTLKGPKGEMSFQARKKVKEQLCELEIGDKVIVKHDGKTALSIVKPRTSKTALAWHRNEETETVREEFH
Ga0209317_1009150Ga0209317_10091504F096266MMDARVIFLLLTFVLLAILVAIAFSTLKKNRKKKLEEPKHRMLEDD
Ga0209317_1010480Ga0209317_10104804F087945MGGVPAEIIGYRTAEQTCDGWNPSDHPEFREFLDHVAEILAHEYVRRMRETADPKDIEDWEKGGR
Ga0209317_1013236Ga0209317_10132362F085179MRILNSKRKKAKSSREIAIFLLLTYFAMGAGLVDSSVLCIGEDGHLAIESAASCAFCASRVLLPVPPESLNLEGSSAPGCGPCQDFSIASGREFPGIALPSLPGSARSDLALPSMEPAEGSRTTIAFASSVSVPLGIPDPIALHARTVALLI
Ga0209317_1016676Ga0209317_10166762F026037MEEEDDKVHRLLHADMKVDRQLERLADVQKLTEIIHYYREKRARSSEIALAIVRFVREG
Ga0209317_1019808Ga0209317_10198083F090572MKRHTVIMPFNLPRLTDKAAAQFIELLHQLFANIEHHYAEQAHRYRKHQHEIQYRRQSPSSRPTDPPF
Ga0209317_1023761Ga0209317_10237613F046176VKPDSPKPTPEKPAPLTEWAPQFNISISDQEKDPYALLQNLPGSNVKMTPENMRELARYLVDAAAMCEKRQYRGLKHFSIFRENERFLSSVVLVPFNQMRDLQTLALAALRSGDVLAANKEQYVVQFIREGLQRQLPLINMQLKKQGMRAISLKSLKK
Ga0209317_1028711Ga0209317_10287114F016087MEKFWGILGSLVEFLGTLAMVFIALAFAFSIGYHVGFTSGLDTKVTWVGEKYTMKANGSR
Ga0209317_1043267Ga0209317_10432673F047545MFAIMAKTPEQVDELLKLVGDQDIATLRALERQLHSLLEQKERNETLQRHGEADRDALSKQCPNVPIDPDLLALVGIHPENPVKDDKALIREIIARRLTD
Ga0209317_1052502Ga0209317_10525022F040940VGSINNIFTLVLGINLILVGSVAFIAGIATLVKKTDPVKKPTSIVYVIAGVAAVYVGFVLSKGSF
Ga0209317_1058245Ga0209317_10582452F069627VNLTDEDAIPVYIKISEKVLHLRRLGMPFTSIAERLGINPWMAKKAARWGNIQKA
Ga0209317_1068930Ga0209317_10689302F085179MRIPNSNRRRLKFSRKTAILLLLAYFAMGAGLVDSSVLCIGEDGHLAIESAASCAFCASRVLLPVPPESLIPEGSTASGCGPCQDFSIASGREFPGIALPSPPGSVRSDFSLPSMEPAEGSRTMIAFASSVSGPLELPDPIALHARTVVLLI
Ga0209317_1075655Ga0209317_10756552F087945MGGVPAEIIGDRTVEQTRDDWNPSDHPEFREFLDHVAEILAHEYVQRMRETADPKDIEAWEKGGQ
Ga0209317_1117708Ga0209317_11177081F027235MDSYVVRIYRRAGRKSRILIGTAEVAGAEKRLGFSNIEELWEILGRRKGRDLCAPASPLRRLRKEVTSATVGTDLEESAEGDRQIKLT
Ga0209317_1125954Ga0209317_11259541F046176KPQKTATAAWTPKFTVSFSDQAKEPYALLHDLPGPTVKMTPDDMRELARYLVDTASICDQGKCRGLENFSIFRENERFKSSVVMVPFNQMRDLHTLALAALRSGDVLAVTKEKYVVQFIREGLQHQLPLINMQLKKKGMRAISLKSLKK
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