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 3300021458

3300021458: Sediment microbial communities from the Broadkill River, Lewes, Delaware, United States ? BRT_1-2_MG



Overview

Basic Information
IMG/M Taxon OID3300021458 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0129088 | Gp0217612 | Ga0193946
Sample NameSediment microbial communities from the Broadkill River, Lewes, Delaware, United States ? BRT_1-2_MG
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size99921167
Sequencing Scaffolds18
Novel Protein Genes20
Associated Families18

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria3
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi1
All Organisms → cellular organisms → Bacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobulbaceae → unclassified Desulfobulbaceae → Desulfobulbaceae bacterium1
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium1
Not Available6
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria1
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Halobacteria → unclassified Halobacteria → Halobacteria archaeon1
All Organisms → cellular organisms → Eukaryota → Sar1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameMicrobial Communities From Sediments And Microbial Mats In Various Locations
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Freshwater → Sediment → Unclassified → Sediment → Microbial Communities From Sediments And Microbial Mats In Various Locations

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

Location Information
LocationUSA: Delaware
CoordinatesLat. (o)38.7906Long. (o)-75.1638Alt. (m)N/ADepth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008361Metagenome / Metatranscriptome334Y
F012457Metagenome280Y
F012678Metagenome / Metatranscriptome278Y
F019474Metagenome229Y
F026445Metagenome / Metatranscriptome198Y
F029111Metagenome / Metatranscriptome189Y
F029766Metagenome / Metatranscriptome187N
F032659Metagenome / Metatranscriptome179Y
F064729Metagenome128Y
F070125Metagenome / Metatranscriptome123N
F074892Metagenome / Metatranscriptome119Y
F076890Metagenome / Metatranscriptome117N
F080062Metagenome / Metatranscriptome115Y
F082775Metagenome / Metatranscriptome113Y
F084254Metagenome / Metatranscriptome112Y
F099324Metagenome / Metatranscriptome103Y
F101181Metagenome102Y
F105196Metagenome / Metatranscriptome100Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0193946_1002574All Organisms → cellular organisms → Bacteria → Proteobacteria1843Open in IMG/M
Ga0193946_1002826All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria1776Open in IMG/M
Ga0193946_1003073All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi1721Open in IMG/M
Ga0193946_1004189All Organisms → cellular organisms → Bacteria1520Open in IMG/M
Ga0193946_1004406All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobulbaceae → unclassified Desulfobulbaceae → Desulfobulbaceae bacterium1486Open in IMG/M
Ga0193946_1006465All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria1262Open in IMG/M
Ga0193946_1007166All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium1207Open in IMG/M
Ga0193946_1010082Not Available1031Open in IMG/M
Ga0193946_1014885Not Available856Open in IMG/M
Ga0193946_1016277All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria819Open in IMG/M
Ga0193946_1018382All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria770Open in IMG/M
Ga0193946_1019312Not Available751Open in IMG/M
Ga0193946_1019936Not Available741Open in IMG/M
Ga0193946_1025936All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Halobacteria → unclassified Halobacteria → Halobacteria archaeon649Open in IMG/M
Ga0193946_1033579All Organisms → cellular organisms → Eukaryota → Sar571Open in IMG/M
Ga0193946_1035303Not Available557Open in IMG/M
Ga0193946_1037480Not Available540Open in IMG/M
Ga0193946_1042908All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae507Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0193946_1002574Ga0193946_10025741F101181MGMDDTNHVKLIVLVCVIAVLVVGISIGGPKFINAVQMHFGSKGKIELMERCIEMPGCTIGPDDLDFYERYHAIRESDAAQKIASLEKYVGSFRYRQSPQRMI
Ga0193946_1002697Ga0193946_10026972F076890MTGNRTVTTTLLVTLALLVSACSTLDFEDYCRYSDEHSIREADPESLALVLGVKRGLARETPFVVVRSLSEHNRGAVIKLNATAAPHPIPMSLDESRCAAVDWNTYTLTVDEGEWNAFWSDDRNSPFEIAIAFLDNNESLLVSKFGAAIVDT
Ga0193946_1002826Ga0193946_10028263F105196MHIVDRCRDPYGKLSAARRTLLKQLLNAPDRLNWERARGLIIRDIPIVTLESAVRSVRRNTAADRTPDPFTLYRALRFAVDYESRETESDCGGICR
Ga0193946_1003073Ga0193946_10030731F026445VNIDQAKPKRQKRTITLYLGNTLGEYEATYLTETGLKALIRRVETADSINWGCLATGHEAGCPRQLHFTHHDSYSRWVKHFNGTQSVVVIHRVRCLDCGAVFSVQPSFLIRYKRYDTDATEKLMTLLFITEDSYRMAGVSQTLALDDQQAGTWAALEIHQAHAIQPLALWRLVQWLGQLSPAQLNLALGVEPPQIIIEDEKHATECGQKSYIPLVYAPKEALIWWVDYLHSVSEADLTASLERFKAISDRLVDIIGATVDGWEAAQNALQATFEGITLVECHFHALLKLGQHLATYKRQRKQAGQPLSETEEIAIRAAFWRVLKATTPEQYQQALDQLPEAFEQEPLASRKQSLIEKQALFLAWTTDQRLAVVTTALDQCMKFLDRKLENMQTFHSAKSGLATVNAWAITRNCWRFLKGAKRAGLSPLELAGADFLGNRN
Ga0193946_1004189Ga0193946_10041892F029111DPDDSRTVSRTGIDENTSKEPEENALVDILMTMSQIPDVNRELAEAGAMFAVFEALRRSGRR
Ga0193946_1004406Ga0193946_10044063F099324MLGWVLVLSGCAAIDKGHNIEGEDYRGGYPPRGGYTRTTQHKALVSEACNIEANNLAGDKDFMADDRARRVYFSQCMQRNGYNAAGNYVGIPPK
Ga0193946_1006465Ga0193946_10064652F012457MMIKDLEMSKDLDRDDLSAVRGGSNSIKQYGIEAPVANIGSGFSFASPTTIVSAPVNAPSAVLNDNDLRLKLDNDYASVVGSALSGIIQ
Ga0193946_1007166Ga0193946_10071661F074892MTAMTSKYVSIVLLGLLLSSCAERGENVYKSWVGPDRPNMAIVTLRLGDDVRDITVRERVLPRSEYGTLLLVPGQYTLYEDDGANIGITIRPVMMNTEKARASGELILGHTYILHAGKSKDGGERALWIEDARSGEVFIDT
Ga0193946_1010082Ga0193946_10100823F070125MEALHAYRDDSERLFGLVASLANLLDRDLVIETMESVLGITAVHDGDCIIFDDLAIRFGSDGRVKSVFRTIDGSGSDGARANPGDSNG
Ga0193946_1010843Ga0193946_10108432F076890RVCAKSWNKQELQERLMSMIGTRSVAAMLVAMGALGTSACSTLEVDDYCRYSETRSIRTADPESLALVLGVQAGRARQTPFVVIRSLSESAPGTSITLYTTPAAHPMPMGLDESRCARVDWSTYTLAVDPEEWNAFWQDDRNSPFEIGIAFLEDFHPLPLSAFGAVILDTGSADYLVSCGCFWR
Ga0193946_1014885Ga0193946_10148851F084254IVIEIMAEVIRQSKRYPRADQVASALAKRGVPIAEKDVMIVFDQYDIEKKTADSH
Ga0193946_1016277Ga0193946_10162773F082775MNEPDILYPAIFVFSMLLIGLVLTMWEFSRLQKRKQQMHEEGGHVANREFHASRDN
Ga0193946_1018382Ga0193946_10183822F080062MQLTLPKILWFVAALGLAWGINQWRQQAAAHVLAAAQEGDRDAAESWVDRALRESQCELHEASDYLASEATRQYV
Ga0193946_1019312Ga0193946_10193121F008361TKELEKATLAVENAETSKARLDASIDLKKAVARLEGLNYLS
Ga0193946_1019936Ga0193946_10199361F064729MGDLKEWLKYWRKVISKCSKIHKDSKIHKKAYAELSGYLNSVEECANVGELDATVLWAVRFMQRMHELEKEIGLH
Ga0193946_1025936Ga0193946_10259362F012457MSKDLDRDALSAVRGGRNSIEQGGVYAPVANAGGGFSFGSPTSIVSAPVNASSAVLNDNDLHLKLANKSADVLGSFGTEIWQ
Ga0193946_1033579Ga0193946_10335793F012678MRSQHSLEEIAELYGLLENIKKEYETGIHSVLRKSNPELFSNPHTIPKLKKISINRGLGLAAQN
Ga0193946_1035303Ga0193946_10353031F019474STDDMNALFTTQEDKNMVIEFEVDTYKIPAFALPALVNGDYTGIMDDDEAFVDNLCEWLNEQYGEGLWHIGEVGEQYFGRADFDNLSGDVCDVELVYKMVEMEA
Ga0193946_1037480Ga0193946_10374802F032659PNQATTGNHRKPDPEPSESKHEEKQFRETVLPSGKIDGETAKGRADVGDVPTAETLGSLARKVLSSSRHAESRELARVVLELLAHWSRFK
Ga0193946_1042908Ga0193946_10429081F029766TVWSFSSCVAGLLLAGGMGLAEGSNLWPLGAIWGGLAGLIIGAIFGVILKLIKVPMKYAWCFLGVLVFLAFFMRIYIKYYHISDYGKLVEASIVECKTSSFLFTPPWRNGEERREINGTDLTLNVTRERKLGKYEDGRIKLYEWRLADYQKTYFMEEAKCETMTPGKV
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