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 2046860007

2046860007: Freshwater sediment microbial communities from Lake Washington, Seattle, for methane and nitrogen Cycles - Microc enrich af exp to meth lab w 13Ccarbon-no added nitrate



Overview

Basic Information
IMG/M Taxon OID2046860007 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)
Gs0060820 | Gp0051555 | Ga0026416
Sample NameFreshwater sediment microbial communities from Lake Washington, Seattle, for methane and nitrogen Cycles - Microc enrich af exp to meth lab w 13Ccarbon-no added nitrate
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?Y
Use PolicyOpen

Dataset Contents
Total Genome Size76631179
Sequencing Scaffolds14
Novel Protein Genes16
Associated Families15

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available10
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira oceanica1
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Peregrinibacteria → Candidatus Peribacteria → Candidatus Peribacterales → Candidatus Peribacteraceae → unclassified Candidatus Peribacteraceae → Candidatus Peribacteraceae bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria1

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 biomefreshwater lakelake 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?
F008881Metagenome / Metatranscriptome326Y
F009004Metagenome / Metatranscriptome324Y
F022903Metagenome212Y
F027186Metagenome / Metatranscriptome195Y
F027195Metagenome195Y
F031100Metagenome / Metatranscriptome183Y
F031499Metagenome / Metatranscriptome182Y
F031548Metagenome / Metatranscriptome182Y
F034983Metagenome173Y
F046728Metagenome151Y
F055309Metagenome139Y
F074886Metagenome / Metatranscriptome119N
F082695Metagenome / Metatranscriptome113N
F098877Metagenome103Y
F104669Metagenome / Metatranscriptome100Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
LWAeNNiSIP_contig00183Not Available1023Open in IMG/M
LWAeNNiSIP_contig00524All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Bacillariophyta → Coscinodiscophyceae → Thalassiosirophycidae → Thalassiosirales → Thalassiosiraceae → Thalassiosira → Thalassiosira oceanica2745Open in IMG/M
LWAeNNiSIP_GDP3C2T02G6Z6YAll Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Peregrinibacteria → Candidatus Peribacteria → Candidatus Peribacterales → Candidatus Peribacteraceae → unclassified Candidatus Peribacteraceae → Candidatus Peribacteraceae bacterium530Open in IMG/M
LWAeNNiSIP_GDP3C2T02GALZ5Not Available507Open in IMG/M
LWAeNNiSIP_GDP3C2T02GECEUNot Available509Open in IMG/M
LWAeNNiSIP_GDP3C2T02HFTHTNot Available529Open in IMG/M
LWAeNNiSIP_GDP3C2T02HL67PNot Available544Open in IMG/M
LWAeNNiSIP_GDP3C2T02HMKT7Not Available558Open in IMG/M
LWAeNNiSIP_GDP3C2T02HQ712Not Available520Open in IMG/M
LWAeNNiSIP_GDP3C2T02HWUNMNot Available530Open in IMG/M
LWAeNNiSIP_GDP3C2T02IBEKNAll Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria534Open in IMG/M
LWAeNNiSIP_GDP3C2T02IE003Not Available537Open in IMG/M
LWAeNNiSIP_GDP3C2T02J33FCAll Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria521Open in IMG/M
LWAeNNiSIP_GDP3C2T02JYRK1Not Available508Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
LWAeNNiSIP_contig00183LWAeNNiSIP_1848190F074886MPKIPRNFIQEFPYGVSIEDSLNKGMKYLNADPNYITNWKDIIFTPIENFIHHQVFIFSEGKDMLIGFLVSQQATFLPDFISATIQLFGGVYTIDDTTNSIFIQEFIYYSILFLIGLGSARLAISMWLIINPYTMPWFLLLTATEWFMDSFAGIFPAVFGIEMTGSIVLGLLGSLAVYVKNLVLTMPYLPSEAIKQTIGIHEVYTFGGIPILWKIFSVPDKLREEWYKSTPYLIENLIKYYGDEGVEFVPSRILKEFYNNTPVADYTYYFAFVFSEFK
LWAeNNiSIP_contig00524LWAeNNiSIP_4647590F082695LFVQFTFFSYESETGDETDVAKWAHKLMNRSVANRTITKQEAMCELGGLPMVICSESIETISITGSTKCATDTNTSTILSQYRNRPDAQQHLSLHQFYHIKKNKKLASTPSYREFIPHYVGGKGQPVYPITRSYARSELLKHLPWGRKNPMPNDCDLITMFKQFLENPKCPVGVRLGFERAKLRKELKEKGIQEAFQPDIEHSSNTDDVDDDEVGEVIALTESLGYTEDELEKLENNGFFLGKDYDWGKRIYTVSNPTIHHTRFGIILNY
LWAeNNiSIP_GDP3C2T02G6Z6YLWAeNNiSIP_3623920F031100MSDAPSSLDTAKYRHLVLDSLAAIQGFQVPEYDDLVVTYYGATNNIATVTYKKASVVVATLTLLYSVQP
LWAeNNiSIP_GDP3C2T02GALZ5LWAeNNiSIP_33470F027186MISNFDFNFKNTPTLTLELPFSEHIEELRQRIIHIFWIILLLSLLVIY
LWAeNNiSIP_GDP3C2T02GECEULWAeNNiSIP_3996030F027195VSYTAVSYTFYDYLELPQDATPARVEAAYVGLLERFGYGTTDAGQDMSNRVAMIHAAYNVLANP
LWAeNNiSIP_GDP3C2T02HFTHTLWAeNNiSIP_540370F046728MLRYMVYGVLPLLLLFALLQRFGAGDIGALVVVLAALLPFIAIGWLGYQHFRHRRK
LWAeNNiSIP_GDP3C2T02HL67PLWAeNNiSIP_2095760F008881MKKVVCINDKNLPQGAEVVNGKEYYVVNEFVNTFDQRVFIISGITNKGTTKFRLNWLGYCSTRFADLDDI
LWAeNNiSIP_GDP3C2T02HLG94LWAeNNiSIP_1880170F034983TLPAVIAGLDEDAGRLMSEIAVEGVPAEGISAEDCVRELRRQPLKARMAEIQKRLAGTSGDAQEALLAEKTRLVRQMAGL
LWAeNNiSIP_GDP3C2T02HMKT7LWAeNNiSIP_4626600F009004MKTEFNKVIDFLELQQQEDKLNTNQLHLIIQTLCTFLDDEQLQEVENLFNQFKK
LWAeNNiSIP_GDP3C2T02HQ712LWAeNNiSIP_4669390F098877LNLIVSVVIGVLAAQKFFQLFDKTVPAGSMTDLVRAGTHTAYLVTGVVFGLVIFAWTAAAAWLARFFPAAGSEAHAPGQAAK
LWAeNNiSIP_GDP3C2T02HWUNMLWAeNNiSIP_3243830F031499MANIPVNFGGVILTAGNSVTGSFAGITSLGTGSSVAITGSIILAFKYGVGLQADQAIIQATGPSFTIPAGVTVPLMITSCSLAALSAPVLLYT
LWAeNNiSIP_GDP3C2T02IBEKNLWAeNNiSIP_653910F031548VKTNILKIFAIATLMIFIGAGVSMADGWKENGGNRGHAYGHYKQREYQHYQYYAPRPVYVERQYYPVVVERHVYHSPVVYQAPSPSGYFVGISVFEPGMAFSFGMSGH
LWAeNNiSIP_GDP3C2T02IE003LWAeNNiSIP_3901670F031100MSDAPSSLDTAKYRHLVLDSLAAIQGFQVPEYDDLVVTYYGATNNIATVTYKKASVVVATLTLLYSVQPPTANDANLVRVTIS
LWAeNNiSIP_GDP3C2T02IVOZZLWAeNNiSIP_4835080F104669MNTLARNGGFWIVVGTAAGTATGMALGVASVGLALGLALGILGGCLTRR
LWAeNNiSIP_GDP3C2T02J33FCLWAeNNiSIP_74140F055309RNREEVLRIFKKWCLLTRDMISLNRADPVAKARHRQIDAPVGPLSDIHSLQYANNVRHILTVNSLQTLKPPRNQRINPQSRSAPEAV
LWAeNNiSIP_GDP3C2T02JYRK1LWAeNNiSIP_230070F022903VSWALFWLVSFAVAFVGFSAISLVIAVRGVAEIRDLFSALEEERRRKASRKD

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