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 3300009796

3300009796: Groundwater microbial communities from the Columbia River, Washington, USA - GW-RW S2_0_10



Overview

Basic Information
IMG/M Taxon OID3300009796 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0114663 | Gp0127653 | Ga0105086
Sample NameGroundwater microbial communities from the Columbia River, Washington, USA - GW-RW S2_0_10
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size38093636
Sequencing Scaffolds24
Novel Protein Genes26
Associated Families25

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → Viruses → Predicted Viral1
All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium1
All Organisms → cellular organisms → Bacteria → Nitrospirae5
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Nitrosomonadales → Gallionellaceae → Candidatus Nitrotoga → unclassified Candidatus Nitrotoga → Candidatus Nitrotoga sp. CP451
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium1
Not Available7
All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Nitrospira → unclassified Nitrospira → Nitrospira sp.1
All Organisms → cellular organisms → Archaea3
All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae1
All Organisms → cellular organisms → Bacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium1
All Organisms → cellular organisms → Bacteria → Acidobacteria → Blastocatellia → Blastocatellales → Pyrinomonadaceae → Pyrinomonas → Pyrinomonas methylaliphatogenes1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameGroundwater Microbial Communities From The Columbia River, Washington, Usa
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Sand → Unclassified → Groundwater Sand → Groundwater Microbial Communities From The Columbia River, Washington, Usa

Alternative Ecosystem Assignments
Environment Ontology (ENVO)freshwater river biome → river bed → sediment
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Subsurface (non-saline)

Location Information
LocationUSA: Columbia River, Washington
CoordinatesLat. (o)46.372Long. (o)-119.272Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004137Metagenome / Metatranscriptome451Y
F005305Metagenome / Metatranscriptome405N
F007831Metagenome / Metatranscriptome344Y
F007886Metagenome / Metatranscriptome343Y
F008161Metagenome / Metatranscriptome338Y
F009436Metagenome318Y
F009467Metagenome317Y
F012359Metagenome281Y
F012915Metagenome / Metatranscriptome276Y
F013894Metagenome267N
F015807Metagenome / Metatranscriptome252Y
F018577Metagenome234Y
F021258Metagenome / Metatranscriptome219Y
F021408Metagenome / Metatranscriptome219Y
F025366Metagenome / Metatranscriptome202Y
F029045Metagenome189Y
F037643Metagenome / Metatranscriptome167Y
F055103Metagenome / Metatranscriptome139Y
F055512Metagenome / Metatranscriptome138Y
F067500Metagenome125Y
F072619Metagenome / Metatranscriptome121Y
F079840Metagenome / Metatranscriptome115Y
F084286Metagenome / Metatranscriptome112Y
F091213Metagenome / Metatranscriptome107Y
F093898Metagenome / Metatranscriptome106Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0105086_100019All Organisms → Viruses → Predicted Viral4646Open in IMG/M
Ga0105086_100725All Organisms → cellular organisms → Bacteria → Nitrospirae → unclassified Nitrospirae → Nitrospirae bacterium1167Open in IMG/M
Ga0105086_100766All Organisms → cellular organisms → Bacteria → Nitrospirae1153Open in IMG/M
Ga0105086_100785All Organisms → cellular organisms → Bacteria → Nitrospirae1148Open in IMG/M
Ga0105086_101103All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Nitrosomonadales → Gallionellaceae → Candidatus Nitrotoga → unclassified Candidatus Nitrotoga → Candidatus Nitrotoga sp. CP451050Open in IMG/M
Ga0105086_103320All Organisms → cellular organisms → Bacteria → Nitrospirae791Open in IMG/M
Ga0105086_104419All Organisms → cellular organisms → Bacteria → Nitrospirae740Open in IMG/M
Ga0105086_104501All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium737Open in IMG/M
Ga0105086_104935All Organisms → cellular organisms → Bacteria → Nitrospirae720Open in IMG/M
Ga0105086_105898Not Available690Open in IMG/M
Ga0105086_108439Not Available632Open in IMG/M
Ga0105086_108616Not Available629Open in IMG/M
Ga0105086_109989Not Available608Open in IMG/M
Ga0105086_110602All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae → Nitrospira → unclassified Nitrospira → Nitrospira sp.600Open in IMG/M
Ga0105086_110727Not Available598Open in IMG/M
Ga0105086_114734All Organisms → cellular organisms → Archaea555Open in IMG/M
Ga0105086_115802All Organisms → cellular organisms → Archaea546Open in IMG/M
Ga0105086_116772All Organisms → cellular organisms → Archaea539Open in IMG/M
Ga0105086_117098All Organisms → cellular organisms → Bacteria → Nitrospirae → Nitrospira → Nitrospirales → Nitrospiraceae536Open in IMG/M
Ga0105086_118016All Organisms → cellular organisms → Bacteria530Open in IMG/M
Ga0105086_118542All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium527Open in IMG/M
Ga0105086_118796Not Available525Open in IMG/M
Ga0105086_119223Not Available523Open in IMG/M
Ga0105086_119865All Organisms → cellular organisms → Bacteria → Acidobacteria → Blastocatellia → Blastocatellales → Pyrinomonadaceae → Pyrinomonas → Pyrinomonas methylaliphatogenes519Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0105086_100019Ga0105086_1000195F084286MAFNCGVSFGACMVRITKVDENGNVIAGDNSYVTDKPISISVNPNIETGNAFSVRNGCGCSISRRKFPDTFNWWELSLQTATLEPEMIAFMLGADTIDDGADVVGVAFPSALACEDANPAVAFEFWSEHVVGSGLDATYPYFHWVFPSSVWQIGDNTFEEGPAQPTLNAFTQTNGNWGDGPYGDGPPDSQDISEGGFWATADALPTAECAAQAVTATS*
Ga0105086_100725Ga0105086_1007252F055512MKEINRSQSMALDDVQRGKLFGGSPVLRDLVGPRCAHCGSPRYFLVFRISGDGRNGILTGRCSRCRNPRELKADEIEQGYHV*
Ga0105086_100766Ga0105086_1007662F025366LLMLLSTVTPRQARSNVEAWLIYFGIENIPPWLADKYTDTWVSWIAFVGFCVWAIHLYLRPNLRNGKLSVMIRAGEPWVQVDPGIDQSQASHTSGKLYTYRIALINSADSTLRNVEVKLMSLEKKPQNFHAMGSHLKLRHDQVGTTNFNVHPTKDSQFMDAVFVDVFKFFSGPEGSSFLHVMSLPEDMNRRIPVDKYDVKIIATSERGEMAVAEIAFVPRPDHIPDFRLLNMQSFPGATRSSS*
Ga0105086_100785Ga0105086_1007852F009436MDLAHISSAAELLTIEHPHFGRIQPPGFLKTTIGTVTGTSRKAVVIADYSSGNRQTVAVQIDPRNFMITIASSFVLVTLKEGESRHSVIHKSWRLVKQRKGEGVEDFFGTVSMYVDSDGLKWEHRFDRTPDEDELIGFGSNGEEVLIITLESFYPTPAPGVSGVIISPTS*
Ga0105086_100785Ga0105086_1007853F007831MNIFATIMFLLPLVLVTLYLYVSGVFTNRRAFQFTFYTLLTFFALIIGIGGVQLSSQGYDLPATAPVSLSEVLPEP*
Ga0105086_101103Ga0105086_1011031F093898MMRFLLARAVNPQLSLLDGLRNWNHVASGLREGRRKRTYQH
Ga0105086_103320Ga0105086_1033202F008161GFHALLIWMGAWHFLSKEAGEGSLLASDLFAGGLLGATALSLLRLSVGRHLLRFVALIGILLVLYHVWQGKAEWGSLTDVAIWAYTFYSFGPSSWRHALYSPLGVFEKLKT*
Ga0105086_104419Ga0105086_1044191F009467RSKIFEALGASFFEAFEEEDLYTRIDLFQKLTQLSHGVTASWNTEDIVDKALDELLSEILTSKVALREFS*
Ga0105086_104501Ga0105086_1045011F015807MERLMRHRGESRETDRPTWSHHRRFFGGQGACRDVGCERVEENHRVVINGSYPDR
Ga0105086_104935Ga0105086_1049351F021408MKKTSIAIATICLLWAAVATVPTTEAATTFAGAIVGIDQTQRTITYQTEDGRTWTLPVTDSNILKQEQIAKGDRVRVEVEVSDDLSQRITKITKIPDQPRTKPTQSLNDVRP*
Ga0105086_105898Ga0105086_1058981F004137MSASLILLGLVGWALGLLFVLALFRMSGEQDRAARHAQQRLHPYSDVTITRTATMRLR*
Ga0105086_107130Ga0105086_1071302F021258FHQRRMQAPLGVTRLFDRMDFRAQIVRAQEIVGDPQSSRGVSF*
Ga0105086_108439Ga0105086_1084391F079840KSTFKVKFTGIQEKVVFRCDVFLLEKIKNTLASQHLAGNYEYPNLSSFFRSALHACQHGMPLTYQRELSNPRKEVSFRLTGELMTFYGSLPLSSRTGIMERALGSYYYRVFG*
Ga0105086_108616Ga0105086_1086161F029045MALLKFEPPKELAPLRVKIARPVHERVERYRQFCGALALADLVERALVYVVDHGPDFRAHEKGSATIRAKVEPRPNASRVSPVDQADGAP*
Ga0105086_109989Ga0105086_1099891F055103MLAGRTTLASGLRGFWPVLAGHLGHARLANRMIYWLRRSSPTWLAQNDPENEGAKILLSRRVSSLRPFRVLMKYPG*
Ga0105086_110602Ga0105086_1106021F072619MNLLSSLMFLMGVWLGENDHTRRITVQEIAPSDRTNLALGKKSRGRDGAEPLLHGSAIVIGVAEESLSTPATAEQECSEWRVFVLRSLCSQAKVQVVACRLCIPKVELHGLAFLNHVSDRDGSGLLIRSNEVPNEEVAPLEMTPMLIDHNAQ
Ga0105086_110727Ga0105086_1107272F091213MGRETLGIESVGLSTPREKLRSGAGQNELAVDQVLANFVAELFATLHPATLPMLERMFEDVKQDAETDGEWELKRRAEIGIAAARIAAREQEAIEN*
Ga0105086_114734Ga0105086_1147341F005305GPLIENFQNLVKDAKAKKLDSLREDEDFKKEFNQLSKDVIEPMMRKFESYLKCKDVNSSVNIQSQIVAGKNPSIEFSLHFKLTHESRYPNIKFSSSGKKISIQEERLMAKGEVRQDMMPEYYDNEQITEEFVKERLIRLIKSCFDKNWQSFYP*
Ga0105086_115802Ga0105086_1158021F067500MVFQHKCYYCTTNGFNSTDEYEPHVVTRHPNLSGYQCPSDTTFYGLEKQGMPWERKMKNDIEWNQL
Ga0105086_116772Ga0105086_1167721F012359LSIILDSLLLKTKEITKSKRGEPKTSSILLISAALIMAIILLMYAGISYTEEMMKQYSMCRDKIVGYGQHGMYPSAEEFKLALSFCD*
Ga0105086_117098Ga0105086_1170981F007886AVLEVLEVVLDGVLAGADEGGAVGVVGVVDVVWSDALGAVSFFSVVAGVGASLPEEGFILSE*
Ga0105086_118016Ga0105086_1180162F037643MGAAEIISLEEVHARKQWDTLRHQLHERFDQWLDTLETQWPEPPASLPEMTATVWDLRQQLTGGITEAIVAHVHRGEHDRTQGNCPRCDGVLRAQ
Ga0105086_118542Ga0105086_1185421F012915VGVPPRGVMTIQRYGELGGRVGCIPTVLQVAMLHGMRQCLEELKKNGTEAAYFKNTPGIEDTRKWYANMGNVELKELEKKYGY*
Ga0105086_118796Ga0105086_1187961F013894MTYQLEEPFFEDKGKITVQKEIGDNKTQMTFSSNGTFKGNIEVTNSGDLVSLSKGNKGTSAQGQGVVTTKDGSEEANYTFLQVGKAITKDGNPVLRGVGSAVWSTDSTDKLAF
Ga0105086_119223Ga0105086_1192232F055103MLAAQDTLASGLRGFWLVVDGHLGHARLANRMIYWLRRSSPTWLAHNDPEIRVLMKYPG*
Ga0105086_119865Ga0105086_1198651F018577CRRKMITILWTGVLAIGTIILIYKEMTALLYILATLGVTALLLVVAMADLSHAERLTNDPRRSEDSAAIGSGITSTFGAKQP*
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