NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Sample 2088090006

2088090006: Sediment microbial communities from Lake Washington, Seattle, for Methane and Nitrogen Cycles, original sample replicate 2



Overview

Basic Information
IMG/M Taxon OID2088090006 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0060820 | Gp0052036 | Ga0026408
Sample NameSediment microbial communities from Lake Washington, Seattle, for Methane and Nitrogen Cycles, original sample replicate 2
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?Y
Use PolicyOpen

Dataset Contents
Total Genome Size412615791
Sequencing Scaffolds22
Novel Protein Genes25
Associated Families23

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Eukaryota → Opisthokonta1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales1
Not Available8
All Organisms → cellular organisms → Bacteria5
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria2
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria1
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage1
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae → unclassified Planctomycetaceae → Planctomycetaceae 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 → Unclassified → Unclassified → 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
CoordinatesLat. (o)47.052Long. (o)-122.267889Alt. (m)N/ADepth (m)62
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001489Metagenome / Metatranscriptome686Y
F002467Metagenome / Metatranscriptome557Y
F003800Metagenome / Metatranscriptome468Y
F004137Metagenome / Metatranscriptome451Y
F005672Metagenome393Y
F006911Metagenome / Metatranscriptome362Y
F009854Metagenome / Metatranscriptome312Y
F025014Metagenome / Metatranscriptome203Y
F029101Metagenome189Y
F029147Metagenome / Metatranscriptome189Y
F029740Metagenome / Metatranscriptome187Y
F037909Metagenome167Y
F042878Metagenome157N
F055239Metagenome / Metatranscriptome139Y
F060894Metagenome / Metatranscriptome132Y
F062868Metagenome / Metatranscriptome130Y
F068992Metagenome / Metatranscriptome124Y
F078375Metagenome116N
F082695Metagenome / Metatranscriptome113N
F083988Metagenome / Metatranscriptome112Y
F089879Metagenome / Metatranscriptome108N
F092033Metagenome / Metatranscriptome107N
F100759Metagenome / Metatranscriptome102Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
LWSO2_contig00006All Organisms → cellular organisms → Eukaryota → Opisthokonta4474Open in IMG/M
LWSO2_contig01227All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales506Open in IMG/M
LWSO2_GGBSFTI02FTASSNot Available527Open in IMG/M
LWSO2_GGBSFTI02GCZUAAll Organisms → cellular organisms → Bacteria523Open in IMG/M
LWSO2_GGBSFTI02GPZZKAll Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria507Open in IMG/M
LWSO2_GGBSFTI02GUGIMAll Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia514Open in IMG/M
LWSO2_GGBSFTI02HBAV2All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria505Open in IMG/M
LWSO2_GGBSFTI02HCH7TAll Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage515Open in IMG/M
LWSO2_GGBSFTI02HFISNAll Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria509Open in IMG/M
LWSO2_GGBSFTI02HSNQRAll Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Planctomycetia → Planctomycetales → Planctomycetaceae → unclassified Planctomycetaceae → Planctomycetaceae bacterium505Open in IMG/M
LWSO2_GGBSFTI02HSW1CNot Available505Open in IMG/M
LWSO2_GGBSFTI02IIPZTNot Available515Open in IMG/M
LWSO2_GGWJX9X01DZEQWAll Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia520Open in IMG/M
LWSO2_GGWJX9X01DZTIKAll Organisms → cellular organisms → Bacteria529Open in IMG/M
LWSO2_GGWJX9X01ECV6ENot Available522Open in IMG/M
LWSO2_GGWJX9X01EZFM1All Organisms → cellular organisms → Bacteria519Open in IMG/M
LWSO2_GGWJX9X02F4LF8Not Available509Open in IMG/M
LWSO2_GGWJX9X02G9A7UNot Available513Open in IMG/M
LWSO2_GGWJX9X02GJJK2Not Available508Open in IMG/M
LWSO2_GGWJX9X02HQPHIAll Organisms → cellular organisms → Bacteria505Open in IMG/M
LWSO2_GGWJX9X02IL72MAll Organisms → cellular organisms → Bacteria509Open in IMG/M
LWSO2_GGWJX9X02IYJRWNot Available513Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
LWSO2_contig00005LWSO2_07661000F092033MQTTAIPAVVNICRGARVQLTGKNFEPDWGLYNGSIGTVKEIVFNKNSNPLDGTQPEYVIVDFPQYCGPQWMESEKTWVPIPVVEMSCSKRCCQLQYIPLSLAYAKTCHTFQGQSVGKNCPISCIIVQPGTRDFEGKCPGLFYVFLSRATDIGSQEDRSTSAIFFEGPEMNSDRIRDLTHSLTTGREYAKVTKRKQWSNHLYRNLITPKISNQQKKDLIQWCQRTKVSEKDVKEILQDPRWRKSHMLNH
LWSO2_contig00006LWSO2_10210050F082695MNKSVANRTITKQEAMCELGQLPMVICSEGIETVSITGSTRCSNETSTILSQYKKRPDTQEHLSLHEFFHTKKNKRLPATRSQREIVPHYVGGSGQPVYPLTKQSISYARSEILKHMPWSQKNPLPNDCDWVALFQDFLNDARCPHSVTIGYERAKLRHELRKKGIEEACQPDTEHSNPTDDLDDDEIGDVIAISESMGYTTDEMDNLEKSGFFIGKDYEWWKRIHTVSCSFMIEMKSSPNEIWIFQNF
LWSO2_contig00061LWSO2_10484110F092033VKEIVFKEHENPLDGFQPEYVIVDFPQYCGPHWMASEKTWVPIPVVEMNCSKWCCQLQYIPLTLAYAKTCHTFQGQTVGKNHPISCIIVQPGTRDFEGKCPGLFYVFLSRATDIGSPGDRSTSAIFFEGPDMTNDRITDLTHSLTTKREYVKVTKRRIWTNHLQNNLINIEISKQQKSSLIKWCERTKISERDVQRVIQDPRWRKSDMLNH
LWSO2_contig01227LWSO2_03256520F005672IEHVVATAAQWGLSQPKVHGEDDRKRALSAVATDLNGRLKQCCKSAESPSKAALEMRSHLTLFARYGLPNEKATQLVRDLTMQAFTPKRR
LWSO2_GGBSFTI02FTASSLWSO2_00571450F060894MAFQTRDEAQDKVSRKVDRVLNKKKREVPLHEMSWDDLNRAGANLAMQEEWLRLKRKQIDRENNAKIK
LWSO2_GGBSFTI02GCZUALWSO2_05148640F029147VDLCGEVVAAADEGAGRADPAPRRLGTGWRDDWSDDDIEDALGLVKDLHLQSDLVE
LWSO2_GGBSFTI02GPZZKLWSO2_03417110F037909MDDPVRVTIVPNEVAADVVCTFLRTEGIRCGHRVTNVGAGSWDGVPNIGGAREVLVDPADLEVAREALASAELGEFVDRVAVACQASR
LWSO2_GGBSFTI02GUGIMLWSO2_02911620F025014YGGKGLKNRQASDIFVSMKTITKRELVRNPALASHLRPGESVLLEDGKEPLVILRRKKRTLTAEDIHTELDRICKGAPEIDTLAVLNDLRE
LWSO2_GGBSFTI02HBAV2LWSO2_00184230F002467PENRQMAQRSLIGPDERFVTGGMVELDTGSARYLIRFTQALERQPGWAWTLFSAVRKLTP
LWSO2_GGBSFTI02HCH7TLWSO2_04381590F029101MAKQSFSVGQVLTAAQMTSLQATAMGGGAASSKTANYVLVAADAGTTISMTST
LWSO2_GGBSFTI02HCH7TLWSO2_04381600F078375LHPEKNKEWTSNLIYLTVDAYGENDPSRVVAALNLDMFNPIQVTQTLPAGNVVTDSVIAGLTYEITPKTFLVTFTCAQPFASGLLLDSTVDGILDEDSLAY
LWSO2_GGBSFTI02HFISNLWSO2_06354640F029740VPVFGAVTPDRSNAAYAAIRGDGRLFELPVFNPGIHYGSVYLAYARQSPRERPQGYSTTATRASELLSRRLRGLSCGHGSLPPGLGVRFVAVHRGLYRQSGWFAP
LWSO2_GGBSFTI02HSNQRLWSO2_01808320F009854MNETTNMDLFSALQSVSEAVPEMRAGQLMAAIGELCADLHGRGLWDATDAELLEAVWQFQRNFEAATVGA
LWSO2_GGBSFTI02HSW1CLWSO2_00963580F003800PLLVDAWIDRLRRRWAIERRNDADHAPGRRLLLRPGSGAAAALTLVLVLLLVLDVAVPDYDISPGILLPLLGAILALLGLEASAVWRGVR
LWSO2_GGBSFTI02IIPZTLWSO2_03944090F042878MKSTPKTQDFEKYFTTLYDEAKGILVQRQRQYGPANIESLGVPGVFSRMSDDKMSRVKKALNGSVVKGRVVLSDASLAELQHPSVRDALIDSANYALILLSLIDGQWTHLQVD
LWSO2_GGWJX9X01DZEQWLWSO2_02798510F100759VTKTITVPESGGMKYYRLKAGTALTIASIRLSGGNVVITYN
LWSO2_GGWJX9X01DZTIKLWSO2_08512660F055239AVIGEIMAAAGGERPGGNEGATAKLPIEFAGYVNPGPARTPIIRFSDAAIEGAKKKAEAWKALCAKYKPLVEATRTKAKVA
LWSO2_GGWJX9X01ECV6ELWSO2_10551320F003800MGDERHDDADQRRADVYSSARIGAAAALTIVLVVLLVLDVAVPDYDISAGILLPLLGAICALLGLEVSAFWRGVR
LWSO2_GGWJX9X01EZFM1LWSO2_07755260F001489KLLDFEERVVHAEERTHHDAILQKIHDYVWELIDIWGEAPIRRRIGEIEKQALNSRPRTVFDPPRREFLRKYFNVPVDNVRKFPAWREYLYLNVLGFPPEPVYIENWPADVPQPKAGA
LWSO2_GGWJX9X02F4LF8LWSO2_08328620F062868VHVSRERAWEALLRDKKGRLRIVLLGPDGAHEEELPEPDVRAALDALIAE
LWSO2_GGWJX9X02G9A7ULWSO2_07409850F068992LVNVFGNDLPFLRWPRGLALTLLDTVLPAKRAFTRAMLFGLR
LWSO2_GGWJX9X02GJJK2LWSO2_08811370F089879TYNEAGVGELNFFGQVAGQAGVTLQDTNLPKAGSFGQTHFQLKSISTDIQIGNNNVDDFTRANQATLDTQALASDFLLGFVQAGVLNFSVGARPFATIPKPFQYAPPPGSPLDLENTFVNQISAAPVPAVGAAQVVGVPWVTQTKMRSNVYFVDPNILIEAEQQFNVKI
LWSO2_GGWJX9X02HQPHILWSO2_00069350F006911MRVHRGFSRRKFLAGAVGASATLALGSPVALGAPAVRKGTSLRLWILKTYVEPTNKAIEASAQRWAEKHGGAVTVEYFTFEDMQTKYVAAIENKSTPDVGQLETGARRALPAWDSCSTSR
LWSO2_GGWJX9X02IL72MLWSO2_07732000F083988LNHTILEAFDGPQLQGQVAVTSRYRLNAIRNEHWGEHWGHTDDELVDRLLVKKGGDDLAAAHQPDILV
LWSO2_GGWJX9X02IYJRWLWSO2_08422030F004137MDLNLIVLGLVGWALVLLVVLVLMRMTGDQDRAARHQEKLLDPLSDVTITQFGNS
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.