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 2006207004

2006207004: Sediment methylotrophic communities from Lake Washington - Formate enrichment



Overview

Basic Information
IMG/M Taxon OID2006207004 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)
Gs0055738 | Gp0050987 | Ga0029407
Sample NameSediment methylotrophic communities from Lake Washington - Formate enrichment
Sequencing StatusFinished
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?Y
Use PolicyOpen

Dataset Contents
Total Genome Size17570569
Sequencing Scaffolds11
Novel Protein Genes13
Associated Families13

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium1
All Organisms → cellular organisms → Bacteria2
Not Available2
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Gaiellales → Gaiellaceae → Gaiella → Gaiella occulta2
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameSediment Methylotrophic Communities From Lake Washington, Seattle, Washington, Usa
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Freshwater → Lentic → Sediment → Sediment → Sediment Methylotrophic Communities From Lake Washington, Seattle, Washington, Usa

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, USA
CoordinatesLat. (o)47.676484Long. (o)-122.228394Alt. (m)N/ADepth (m)63
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004076Metagenome / Metatranscriptome454Y
F017845Metagenome / Metatranscriptome238Y
F018387Metagenome / Metatranscriptome235Y
F024397Metagenome206Y
F036084Metagenome / Metatranscriptome170Y
F038804Metagenome / Metatranscriptome165Y
F039184Metagenome / Metatranscriptome164Y
F047750Metagenome / Metatranscriptome149Y
F051216Metagenome144Y
F056700Metagenome137Y
F062281Metagenome / Metatranscriptome131Y
F087557Metagenome110Y
F098288Metagenome104Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
lwFormate_BCIX10707_g1All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium834Open in IMG/M
lwFormate_BCIX18975_b1All Organisms → cellular organisms → Bacteria841Open in IMG/M
lwFormate_BCIX19348_b1Not Available807Open in IMG/M
lwFormate_BCIX20766_g1All Organisms → cellular organisms → Bacteria824Open in IMG/M
lwFormate_BCIX2578_b1All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium746Open in IMG/M
lwFormate_BCIX3473_b1All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Gaiellales → Gaiellaceae → Gaiella → Gaiella occulta759Open in IMG/M
lwFormate_BCIX4645_b1All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage753Open in IMG/M
lwFormate_BCIX4899_b1All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium685Open in IMG/M
lwFormate_BCIX7371_b1All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Gaiellales → Gaiellaceae → Gaiella → Gaiella occulta790Open in IMG/M
lwFormate_BCIX768_g1Not Available883Open in IMG/M
lwFormate_BCIX_C2403All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria1499Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
lwFormate_BCIX10707_g1LWFOR_30052F087557VARAALTARGQRLRVAAAVPALAAIFLFGLALLDRRGWRLDLTPGRRYTLSDHAERVLEALPADVRILAFLRSQDPRNVVIRDL
lwFormate_BCIX18975_b1LWFOR_38548F018387MIGVEVPLLDQGSVQFILLGVMILAVFALLWITIAK
lwFormate_BCIX19348_b1LWFOR_39464F004076MMKHVCVAARIGDGKAPGEANTHCIRKTSNAASADSGCNPSGWHEFWPMALSKAPCLE
lwFormate_BCIX20086_g2LWFOR_40294F062281MSKDLVLLQVLREHTLILVGFDRRTMAMHAGDLTKAGAGHTGVILYRRNVAQMDYGKQARLLVEFWKAAQYRDWNDLIIYLPGGTEASA
lwFormate_BCIX20766_g1LWFOR_40988F024397MDDIGRLVLSQEQASANYATRQVRCRRTAEVSWEVVDANTGVAVATGLVSRDEALRFVRGWERLSLKLDGGLDGHQLLH
lwFormate_BCIX2578_b1LWFOR_21309F047750MARSRMDDILGTVRDAGDRSQEIASQVAARVEDVLDEAGAQGKRVRKELARRWKHVDRMGRDNAFVMAFGALAVGVLIGYLVARDDD
lwFormate_BCIX3473_b1LWFOR_22334F017845MDTALALAGPYAAPALGFTGEPAQQEDVIWWIVVVGFAYAVALAWATWCRHNGGSAEISFGWTGFKVACRSR
lwFormate_BCIX4645_b1LWFOR_23372F036084SQFDIAKMSSPKSSPVRAVIPDCPAFPNQSVTRVDVEFKYPAIEPQIKQIARLLGLDENRIVMMTTPYEDSLDSEAVKITDQNKDLLDNPDYPADDKMQKNLKKDYSAEPHNHVVLKNAYRSNFSVAGGKTPPAKTSNDLPMGNKSPMSNVKRPPKPATGAQPRG
lwFormate_BCIX4899_b1LWFOR_23682F039184VSEDWGFVRAADLARTLDESFELAWIAEIEAAWQSADLDHGSFGFVLAMANGQRLYWLYVSDDAGAGRAEDLEIVELAASQMPTAPETAHWYDPANLTKRLSVMRRF
lwFormate_BCIX7239_g1LWFOR_26373F098288GAPVTVWQFDDAALSLLERGIRLRLRVAADGRSVLTLKVADQDCARLDRGLVPPGEGKCEYDVYGKSMAGAVSLNLGLGTRRTGDLLAGRVTPAQVLSPSQVRYLREVVGIWPLPPEIRKLGPMQVRTYRTKGKADAIDISQLPDGEQYAEISRKVPQVDALRTMGVMQADLSRAGVLVCADQSSQAASKLRSLLR
lwFormate_BCIX7371_b1LWFOR_26545F038804MTIFGNRDSGYGSSPTVDAAPALESLDRPATSTRSFGAPDTRRVILRVHGDENILVGNAEGRDNAVVVARNMVQHIEQAAAKGEWPQIEERFIRPGAIVSIDVQRPE
lwFormate_BCIX768_g1LWFOR_26914F051216MTTAEKIGLYGKGAADVAKARAEMKKAAEHAEKNFSKTKAYNCTVQPKK
lwFormate_BCIX_C2403LWFOR_17381F056700AAQEMSQGFVYAYQTALEAALSENNNPRWKPMIPQIFARLLHYHGTDAKLRAFRHERWIPAKWTNLHQLHARAIELGIARVAVALPSAGPGAMQWSTEQEYVYALLIQQLNMGSLSPAEIDWASAQMRAWGRKLEFETVPRSSEGFYVDFASKRGLVRRTGNESGPTLHFLDTTPLADQLERAMHSLRQADIGEPGAAAALNLQRIGILEKVRPVVAPNLHGDLRRSPRLPVTVAAKVRVGLARICAEMTPRELVEPANDANAAGEQIEVFAVADRPRARRHAPDEHDSLAASIAPVGDQAWEVKDRSVAGLRISASGGIGQSLVLGALVAIRQTDAVEWVLGAVRRLNKVSNDEVEAGVSIIADRVVPITVHARRAAKEDLGMVVNGVDVSMMGSRFGALYLPPPSRPEKPLTVKTLIIPTSEYVDGRNLILTTGHSVYTIALRHLVEQRADWSWTAFQIIDKKPTNY

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