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 2088090013

2088090013: Freshwater sediment microbial communities from Lake Washington, Seattle, for methane and nitrogen Cycles - SIP 13Cmethane anaerobic no nitrate



Overview

Basic Information
IMG/M Taxon OID2088090013 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0060820 | Gp0051554 | Ga0026425
Sample NameFreshwater sediment microbial communities from Lake Washington, Seattle, for methane and nitrogen Cycles - SIP 13Cmethane anaerobic no nitrate
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?Y
Use PolicyOpen

Dataset Contents
Total Genome Size308706277
Sequencing Scaffolds37
Novel Protein Genes39
Associated Families38

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Eukaryota1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Cnidaria → Anthozoa → Hexacorallia → Actiniaria1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → methanotrophic bacterial endosymbiont of Bathymodiolus sp.1
Not Available20
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria1
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae → unclassified Planctomycetaceae → Planctomycetaceae bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfurellales → unclassified Desulfurellales → Desulfurellales bacterium1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Thermomicrobia → Thermomicrobiales → unclassified Thermomicrobiales → Thermomicrobiales bacterium1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micromonosporales → Micromonosporaceae → Actinocatenispora → Actinocatenispora rupis1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Gaiellales → Gaiellaceae → Gaiella → Gaiella occulta2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium1
All Organisms → cellular organisms → Bacteria2
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → unclassified Bacteroidetes → Bacteroidetes bacterium1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota1
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → unclassified Betaproteobacteria → Betaproteobacteria bacterium1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameFreshwater Sediment Microbial Communities From Lake Washington, Seattle, Usa, For Methane And Nitrogen Cycles
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Freshwater → Lentic → Sediment → Freshwater Sediment → Freshwater Sediment Microbial Communities From Lake Washington, Seattle, Usa, For Methane And Nitrogen Cycles

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

Location Information
LocationLake Washington, Seattle, Washington, USA
CoordinatesLat. (o)47.07Long. (o)-122.27889Alt. (m)N/ADepth (m)62
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002436Metagenome / Metatranscriptome559Y
F003014Metagenome513Y
F003218Metagenome / Metatranscriptome500Y
F003296Metagenome / Metatranscriptome495Y
F004890Metagenome / Metatranscriptome420Y
F007365Metagenome / Metatranscriptome352Y
F007707Metagenome346Y
F009854Metagenome / Metatranscriptome312Y
F009862Metagenome / Metatranscriptome312Y
F017915Metagenome / Metatranscriptome238Y
F020719Metagenome222Y
F022903Metagenome212Y
F023904Metagenome / Metatranscriptome208Y
F025141Metagenome / Metatranscriptome203Y
F025233Metagenome / Metatranscriptome202Y
F025574Metagenome / Metatranscriptome201Y
F027195Metagenome195Y
F029526Metagenome / Metatranscriptome188Y
F036266Metagenome170Y
F041837Metagenome / Metatranscriptome159Y
F045100Metagenome / Metatranscriptome153Y
F045785Metagenome / Metatranscriptome152Y
F052392Metagenome / Metatranscriptome142Y
F053464Metagenome141Y
F059775Metagenome / Metatranscriptome133Y
F062801Metagenome / Metatranscriptome130Y
F073210Metagenome120Y
F082680Metagenome / Metatranscriptome113Y
F082695Metagenome / Metatranscriptome113N
F087178Metagenome110N
F088500Metagenome / Metatranscriptome109Y
F089080Metagenome109Y
F093416Metagenome106Y
F094331Metagenome / Metatranscriptome106Y
F097602Metagenome / Metatranscriptome104Y
F098671Metagenome103N
F098877Metagenome103Y
F104715Metagenome / Metatranscriptome100N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
LWAnNN_contig18887All Organisms → cellular organisms → Eukaryota6239Open in IMG/M
LWAnNN_contig18958All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Cnidaria → Anthozoa → Hexacorallia → Actiniaria1747Open in IMG/M
LWAnNN_GDP3C2T02G2C3XAll Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → methanotrophic bacterial endosymbiont of Bathymodiolus sp.527Open in IMG/M
LWAnNN_GDP3C2T02GECEUNot Available509Open in IMG/M
LWAnNN_GDP3C2T02GQUJBNot Available510Open in IMG/M
LWAnNN_GDP3C2T02HQ712Not Available520Open in IMG/M
LWAnNN_GDP3C2T02JYRK1Not Available508Open in IMG/M
LWAnNN_GHFF8UE02F12J8Not Available538Open in IMG/M
LWAnNN_GHFF8UE02F3CLSNot Available515Open in IMG/M
LWAnNN_GHFF8UE02F6M42Not Available528Open in IMG/M
LWAnNN_GHFF8UE02FVKU8Not Available502Open in IMG/M
LWAnNN_GHFF8UE02FWGHNNot Available516Open in IMG/M
LWAnNN_GHFF8UE02FZ01MNot Available522Open in IMG/M
LWAnNN_GHFF8UE02G4JZWAll Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria508Open in IMG/M
LWAnNN_GHFF8UE02G9I93Not Available500Open in IMG/M
LWAnNN_GHFF8UE02GF3E7Not Available512Open in IMG/M
LWAnNN_GHFF8UE02GMO5FAll Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae → unclassified Planctomycetaceae → Planctomycetaceae bacterium520Open in IMG/M
LWAnNN_GHFF8UE02GVN4UNot Available522Open in IMG/M
LWAnNN_GHFF8UE02H0A80All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfurellales → unclassified Desulfurellales → Desulfurellales bacterium510Open in IMG/M
LWAnNN_GHFF8UE02H6R60Not Available520Open in IMG/M
LWAnNN_GHFF8UE02H89EYAll Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Thermomicrobia → Thermomicrobiales → unclassified Thermomicrobiales → Thermomicrobiales bacterium556Open in IMG/M
LWAnNN_GHFF8UE02H9VV9All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micromonosporales → Micromonosporaceae → Actinocatenispora → Actinocatenispora rupis517Open in IMG/M
LWAnNN_GHFF8UE02HCAQ8All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Gaiellales → Gaiellaceae → Gaiella → Gaiella occulta526Open in IMG/M
LWAnNN_GHFF8UE02HD8S4Not Available502Open in IMG/M
LWAnNN_GHFF8UE02HMW9LAll Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → unclassified Actinomycetia → Actinomycetia bacterium515Open in IMG/M
LWAnNN_GHFF8UE02HOVR1All Organisms → cellular organisms → Bacteria519Open in IMG/M
LWAnNN_GHFF8UE02HUOKJAll Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → unclassified Bacteroidetes → Bacteroidetes bacterium500Open in IMG/M
LWAnNN_GHFF8UE02I88DJAll Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Gaiellales → Gaiellaceae → Gaiella → Gaiella occulta518Open in IMG/M
LWAnNN_GHFF8UE02IAUP8All Organisms → cellular organisms → Bacteria549Open in IMG/M
LWAnNN_GHFF8UE02IOUO9Not Available521Open in IMG/M
LWAnNN_GHFF8UE02IP2TWNot Available501Open in IMG/M
LWAnNN_GHFF8UE02IUNJLNot Available503Open in IMG/M
LWAnNN_GHFF8UE02JCHNHNot Available532Open in IMG/M
LWAnNN_GHFF8UE02JMLSAAll Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota506Open in IMG/M
LWAnNN_GHFF8UE02JST0JAll Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes529Open in IMG/M
LWAnNN_GHFF8UE02JU2C7Not Available510Open in IMG/M
LWAnNN_GHFF8UE02JU9XQAll Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → unclassified Betaproteobacteria → Betaproteobacteria bacterium505Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
LWAnNN_contig18887LWAnNN_03285360F082695MYLIYHYLKTHLFVQFTFFSYESETGDETDVAKWAHKLMNRSVANRTITKQEAMCELGGLPMVICSESIETISITGSTKCATDTNTSTILSQYRNRPDAQQHLSLHQFYHIKKNKKLASTPSYREFIPHYVGGKGQPVYPITRSYARSELLKHLPWGRKNPMPNDCDLITMFKQFLENPKCPVGVRLGFERAKLRKELKEKGIQEAFQPDIEHSSNTDDVDDDEVGEVIALTESLGYTEDELEKLENNGFFSWKGLRLGETDIYSK
LWAnNN_contig18958LWAnNN_04604470F082695MQLYELLASSPLSQLTAFFVFVLRSFESETGDETDVVKWAHKLMNKSVANRTITKQEAMCELGQLPMVICSEGIETVSITGSTRCSNETSTILSQYKKRPDTQEHLSLHEFFHTKKNKRLPATRSQREIVPHYVGGSGQPVYPLTKQSISYARSEILKHMPWSQKNPLPNDCDWVALFEDFLNDARCPHSVTIGYERAKLRHELRKKGIEEACQPDTEHSNPTDDLDDDEIGDVIAISESMGYTTDEMDNLEKSGFFIGKDYEWWKRIHTVSCSFMIEMKSSPNEIWIFQNF
LWAnNN_GDP3C2T02G2C3XLWAnNN_02060540F097602CNCDTLSPKRNSNVDVMNRGSADEAVVIVKFGADEFMVTWRRVKHRISDRMLEVKGGTCKRPWPLIIDRRTEISLTGAVDYLRRKQ
LWAnNN_GDP3C2T02GECEULWAnNN_01125130F027195VSYTAVSYTFYDYLELPQDATPARVEAAYVGLLERFGYGTTDAGQDMSNRVAMIHAAYNVLAN
LWAnNN_GDP3C2T02GQUJBLWAnNN_02160720F025233MNLLIAKLMFTLKLYTGAIIPSDDVDGRTIYSIPSAKIEYAYQAEILRYLETGVFTYDDTLDDSVDLSKVTKAQIKF
LWAnNN_GDP3C2T02HQ712LWAnNN_00959420F098877ALNLIVSVVIGVLAAQKFFQLFDKTVPAGSMTDLVRAGTHTAYLVTGVVFGLVIFAWTAAAAWLARFFPAAGSEAHAPGQAAK
LWAnNN_GDP3C2T02JYRK1LWAnNN_02629110F022903ERGGALVSWALFWLVSFAVAFVGFSAISLVIAVRGVAEIRDLFSALEEERRRKASRKD
LWAnNN_GHFF8UE02F12J8LWAnNN_01612190F052392MLKRPPELQWNFKKPPQPFPQTPGANGVFLAPSGMGKTTTLIAMLLGPYKGIFDQIHVYSPSVDIDSAWIPVKEIAEKLMEGSSFNSEWDEPGLRKMLDAQRDKIKDLKNAKSTKPLPQILTIIDDFADRCDIMHSASNVLTTLFIRGR
LWAnNN_GHFF8UE02F3CLSLWAnNN_06560170F073210ETRMKKITAALIALAACALGSLPIRAEPGLENCYTVRGTADARNPAISTERAERRLHHHIAHEMRSAGGKSIGPTHTHCIRNACEASAIVCRH
LWAnNN_GHFF8UE02F6M42LWAnNN_00343700F094331MRRLLFLALLAGLAWWFLGRRRGEVESSATIGYADGSSVTLAAGSPELDRLLLIAAEART
LWAnNN_GHFF8UE02FP9Y3LWAnNN_00099050F003296VLAEEIRMQVLQRIDIFTDTRLREQLSAQLQPIVDRASVQMVTTINEEVGKLLRA
LWAnNN_GHFF8UE02FVKU8LWAnNN_06608300F104715MRPTLDNYISAHYKEIRKYTNYFLVRMKSTISADAVINNSFLYLCNIDIEVTDPGKVKAYLLNTIKMQILWSTSLTNRQERVTATDST
LWAnNN_GHFF8UE02FWGHNLWAnNN_08001090F093416TGDVAGERPVDQQRRPEENTMATMERWIDVDTQIGEADREWTEFMFRSLVGHYKTSLEDVEWSLADDVEKGGLVTLADLGAGRTRVTVSLDYTGGPGAEEAVGAHLDRDLAAFKRFAETR
LWAnNN_GHFF8UE02FZ01MLWAnNN_01859960F041837MDAFSPELAEHWLASQAMSVDGRSGGRGEDSLSPAQQEAWEELAERVNAARSVY
LWAnNN_GHFF8UE02G4JZWLWAnNN_03005400F025574MSQASEGDATTGTLGRKNLTTMHAVAQALAIGPMFSVALILSGVSRPDIGAGWNAALAVLLAGLGVLAIAYTISLYAGKYAGAGAVYEYLTHGAHPWVGVFTAGFFFVGAL
LWAnNN_GHFF8UE02G9I93LWAnNN_00977940F003014MRGEPEEVEMLRKESKKPYRPKIEYTYTIQDIAELAGTTRNALGTAKVRGKIDPGDFRSVVSFLIRIIIEKRLRGDLFAPAAEAGKKVKKTKSGLPVLGKKPKKLPAVDRK
LWAnNN_GHFF8UE02GF3E7LWAnNN_02243450F020719VLGHSLTTAEHELAREAFALGRTLERAGIAFDPVTFVAVRIIDGSRDEHVDPVDCLNVLVEIGFLERSVALAADLLDEAA
LWAnNN_GHFF8UE02GMO5FLWAnNN_03087910F009854MSACNTREELFGALRSLAEVIPEMRAGQLVAAIGELCADLHGRGLWDATDVELLETVWQFQRNFENATVAANNQES
LWAnNN_GHFF8UE02GVN4ULWAnNN_05273670F029526VSEGNDELSEVEVVTSTVDDDGTVVVDDLTAIVDGDGNVLATDEIIAVEAPDGTIVVDEVISVAGDDGELVAIEEDVVVIESDDA
LWAnNN_GHFF8UE02H0A80LWAnNN_02294010F059775MMSDLSLLNEITQSYTNPITEETSFTYTQTVYIMGPICELYVSASSSMGMPIMSCSLYSTASAVDILWDQEPLPNFSSSEVWPFPGTELTTFGNAMP
LWAnNN_GHFF8UE02H6R60LWAnNN_04027700F062801AAEAMEAAIGDLWSRTDAEAITAYIADGDNEPSRRLAAKLGFVVRGKGRGRSAEPMTVYALRRDDWIALARR
LWAnNN_GHFF8UE02H89EYLWAnNN_05919680F089080MPTPPLRGRRGRDRRIADRVASDFAARHAPPAPGAGDAVDFDIAAVDAEVEDARRPTPTTRSP
LWAnNN_GHFF8UE02H9VV9LWAnNN_02310830F004890MSGSRKDVLLRALEAEAGGESVDPADVFTEDVVGWSPISSVSGLSSAFEVAAFHQVAFSNVVILIRGLDEVGNKAFAEWVIEADHTGPLVLGEDSVVEATG
LWAnNN_GHFF8UE02HCAQ8LWAnNN_07541020F036266AAAAGLFIGLPALILLAALAGPIGWIVAAVVMPLAVLGVILWLGWFRRREDDGPGGGSDTMWR
LWAnNN_GHFF8UE02HD8S4LWAnNN_03929930F007365MVISDLEYIKYTKINKTMNSLKEMAIKDYVSGIDFSGDWSLSKIKEDMRKFLGEEPGIDVIYKKDVMVNEVSGESKEFVGVNKVQIVFTDTDDKFRKIEFIVGDKI
LWAnNN_GHFF8UE02HMW9LLWAnNN_05420310F003218SLAVLAVALGLSVPVALAAGGKVFFEDTVPSGKASSVTITTHHAASFFVLLRVPTAGRAKLYLLGKKAPKGGPLIDTKTFGCEGAAGSFFCKASYEPLPKGTYTWKIAWVGAPKKPAHVELTVRW
LWAnNN_GHFF8UE02HOVR1LWAnNN_06949550F017915QSLSGKEVEIQGFIIPAGPPDLSFFLLSRVSALGNYCCEIATGQDEIVYVATARGVTIAYDPLRVYKVRGVFEAGKHVDATYGVSMYRLRNAKVEVAVGAKIFRAGETPPSTKP
LWAnNN_GHFF8UE02HUOKJLWAnNN_03138770F009862NKVTSMPRSKDEKPLAIRCPNCRQVHEPDFNETTRRYVCSLCAAPVDAQVLIEKKKRGLK
LWAnNN_GHFF8UE02I88DJLWAnNN_04190330F053464VIAIAAGLAVLIGWFRGFNRRSLELTAATFVVVLAAQTVGLILTGGETGSYYWPIIGAVAAGWVGCVWVGSRARRILAR
LWAnNN_GHFF8UE02IAUP8LWAnNN_02226240F023904VDHNFNIIDADAHHLDGAAYKQYLPEKFRERSGPYFPSFGWDIFLNGTTGRRPANADEYCKDLDVEKIGDAVAYPSNALAIGLVRELDLAAELAK
LWAnNN_GHFF8UE02IOUO9LWAnNN_00993270F098671SEPSTGLYIDDLGINTTLLGQLITDQYNTGIELFEGKRAFAWRKLSSDILTRLQATMKADTIIENKRIGQVLTNASNIDLALGAGRYAGIRVKVDPNNTSFLNFYLSTLQIDIYTSSVPVEILVFDMSTLKLIDSFDYVSEAVEEFIGKTFKAKRRKLDLAFVYESLYDTTKM
LWAnNN_GHFF8UE02IP2TWLWAnNN_04851290F087178KFISDPLNDKAKQDFLDFMTKRNKYTLSELSEEESKTKINEYPPYAIQWEGLTVDVGATKNAIRKVDPRFYNGYLMLPSIITMLHAKIKKEIPSKIVSDPTNKAIINFTCRYAFLTRAYNQNSTHTAVAEYLPEVKSEYLNSCKGTYQVIPVAVFIMTLYNACFMF
LWAnNN_GHFF8UE02IUNJLLWAnNN_05506050F082680AAIESDLTLDGACSTLRVTSAEAGNYSSGDIEFLSYRYRITVYG
LWAnNN_GHFF8UE02IUNJLLWAnNN_05506060F045100MSYTVISDVFTPKKKGESITEKELLELGLNIDALVAGKYLKNTAAIKPVEEVK
LWAnNN_GHFF8UE02JCHNHLWAnNN_04556440F002436SSSPSSSGRDGRRVQIPVQDLGLANDVSLLGLLRFLGLGLADLLGLITGSRRENGGTRRIKR
LWAnNN_GHFF8UE02JMLSALWAnNN_05157640F025141TIPYYMIQCEYCPRGFIDTANGLAEKTFHELLHEPEVVNK
LWAnNN_GHFF8UE02JST0JLWAnNN_05419610F007707MNLDLIGQLVKILKDSPELGAIEMRRGLFGLWASVRVS
LWAnNN_GHFF8UE02JU2C7LWAnNN_04754360F088500MKKIVNGIEYDLTAEEIAQREQDAIQAQADKVIRQEKIATELANKQSALNKLKALGLNDAEINSILGK
LWAnNN_GHFF8UE02JU9XQLWAnNN_06053150F045785MLKPALTWIRSLKDPFRNANAAAQWIDALQAADAAALQKEALELVAKFPGARRVVGYAQAEALLRIDARLEPVLAQLAQQYAMKYQKSTDVETRLWHGVFDLVKAFAAAYGAVLRAGYPHSDHKRWQALLPSVLVRLVHYKGIDGKFR
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