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 3300017652

3300017652: Enriched Organic Plus compost microbial communities from Emeryville, California, USA - eDNA 3rd pass 30_C BE-Lig OP (version 2)



Overview

Basic Information
IMG/M Taxon OID3300017652 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0127392 | Gp0191733 | Ga0182746
Sample NameEnriched Organic Plus compost microbial communities from Emeryville, California, USA - eDNA 3rd pass 30_C BE-Lig OP (version 2)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size575686356
Sequencing Scaffolds17
Novel Protein Genes18
Associated Families13

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis1
All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Spiralia → Gnathifera → Rotifera → Eurotatoria → Bdelloidea → Rotaria2
Not Available6
All Organisms → cellular organisms → Bacteria2
All Organisms → cellular organisms → Eukaryota → Haptista → Haptophyta → Prymnesiophyceae → Coccolithales → Coccolithaceae → Coccolithus → Coccolithus braarudii1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium retamae1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Hyphomicrobium → unclassified Hyphomicrobium → Hyphomicrobium sp. NDB2Meth41
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameLignin-Adapted Enriched Soil Microbial Communities From Emeryville, California, Usa
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Unclassified → Unclassified → Compost → Lignin-Adapted Enriched Soil Microbial Communities From Emeryville, California, Usa

Alternative Ecosystem Assignments
Environment Ontology (ENVO)terrestrial biome → anthropogenic environment → compost
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Soil (non-saline)

Location Information
LocationUSA: Emeryville, California
CoordinatesLat. (o)37.83Long. (o)-122.29Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001736Metagenome / Metatranscriptome644Y
F010070Metagenome / Metatranscriptome308Y
F013935Metagenome / Metatranscriptome267Y
F019939Metagenome / Metatranscriptome226Y
F031088Metagenome / Metatranscriptome183Y
F034190Metagenome / Metatranscriptome175Y
F036409Metagenome / Metatranscriptome170N
F041209Metagenome / Metatranscriptome160Y
F050234Metagenome / Metatranscriptome145Y
F051903Metagenome / Metatranscriptome143Y
F052044Metagenome / Metatranscriptome143N
F060311Metagenome / Metatranscriptome133Y
F090719Metagenome / Metatranscriptome108Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0182746_1006924All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales6303Open in IMG/M
Ga0182746_1035104All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Xanthobacteraceae → Pseudolabrys → Pseudolabrys taiwanensis2093Open in IMG/M
Ga0182746_1045803All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Spiralia → Gnathifera → Rotifera → Eurotatoria → Bdelloidea → Rotaria1755Open in IMG/M
Ga0182746_1064008Not Available1407Open in IMG/M
Ga0182746_1065634Not Available1383Open in IMG/M
Ga0182746_1082689All Organisms → cellular organisms → Bacteria1184Open in IMG/M
Ga0182746_1092469All Organisms → cellular organisms → Eukaryota → Opisthokonta → Metazoa → Eumetazoa → Bilateria → Protostomia → Spiralia → Gnathifera → Rotifera → Eurotatoria → Bdelloidea → Rotaria1097Open in IMG/M
Ga0182746_1092900All Organisms → cellular organisms → Eukaryota → Haptista → Haptophyta → Prymnesiophyceae → Coccolithales → Coccolithaceae → Coccolithus → Coccolithus braarudii1093Open in IMG/M
Ga0182746_1102976Not Available1020Open in IMG/M
Ga0182746_1145090Not Available807Open in IMG/M
Ga0182746_1152133All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium retamae782Open in IMG/M
Ga0182746_1153547Not Available777Open in IMG/M
Ga0182746_1160265All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales755Open in IMG/M
Ga0182746_1179534Not Available699Open in IMG/M
Ga0182746_1184010All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Hyphomicrobiaceae → Hyphomicrobium → unclassified Hyphomicrobium → Hyphomicrobium sp. NDB2Meth4687Open in IMG/M
Ga0182746_1233498All Organisms → cellular organisms → Bacteria584Open in IMG/M
Ga0182746_1240658All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria572Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0182746_1006924Ga0182746_10069245F060311LIVARPAIGYIAAMLSRAQRIIIADHARLPWRFFGRLTAVQVGLRAGL
Ga0182746_1035104Ga0182746_10351044F001736MPPPYRRPHHHERVANIERMKRAWEAEADALVTVREFNARIEGKRDVWFWPKIAAALTAKHPWVTIVCDSCGGLTDLDLRMKPRDPEASIRVVLRDVRCPRCNGHGRPRIAGLAQSPAR
Ga0182746_1045803Ga0182746_10458032F041209MGREEASMRACAAHELTRSAVSAALCDQIAELRLKLQKCRTTHLLFLDETALRLSEAPTRTVTLPSEQPFVLATETASYASRYDMIACCVGDRVLLPKIYTPQERSDAGVKGINGAMLRQFIDDMLAQAVEGLDRYPLTLVLDRAPIHMNLDSLLQAFRDRSSESIREIILMPPNAAKRLSPLDNSLFHDWKEEVRKGCPATRTNVARLMNNAWMKMDPKPHYKHCGLTRSKDPYFDCPAPAIHRHAS
Ga0182746_1064008Ga0182746_10640081F034190DRHSLHPQQRPLLSIPPERIVPTPLHLFLGISNRIILEAFGELLGKDLVEAALKPVTTVHSAGCGGAADLHDLNGPEISKWVKKQCSANMLAAAASSSSPSAATKATHSILSRWLEQLHSSLLHCRDWTGDELESWRSVVDDIWQHWRAEAKTEPFPKLHMLRHLLEFAKRHRFLGRASEAQIESFHASFNVFFHKHHLNQGGNTTERLRRSLADASLRAVQPLLCASSSAPSTAFQVF
Ga0182746_1065634Ga0182746_10656341F041209MHVAYMHGFAHCSSTLCDQIADMRRKLQRCRTTHVMFLDETALRLSEAPTHTIVLPGEQAYVVATETSSYSKRYDMIACCVGDRVLLPKIFTPTERKGADVKGINRAMLLQFVDDVLAQAVEGLDRYPLTLVLDRASIHKNLDALRQAFHDRGSEPIKDILLMPPNAAKRMSPLDNAMFHDWKEECRRLCPATAKTIQRIMSDAWMKMKPKPHYKHCGLIRNTDVYFDCPAPAVHQHGN
Ga0182746_1082689Ga0182746_10826891F090719MNELSPIDRMRAEAVTPDPIHPKVRELDVIDTDFHFSPPWATIRSYLQEPFRELLHHYPATSLEYNPEPANEKPGVGQDTHGTAGTALEVLAVLDRMGVGTVILN
Ga0182746_1092469Ga0182746_10924691F041209ICLFCLPSCWRRQLFSQLFKQHTQQDSSTDRQCSCVTRHILFLDETALRLNAAPTQTVVLPGEQAYVLATDTSSYASRYDMIAVCTGVETLLPKVFTPAERKGADVRGVNSAMLQQFIDDTLAQAVEGLDRYPLVLVLDKATIHKNVDAIRQASHDRGSQAIRDILIMPPNAAKRMSPLDNALFHDWKEECRKRCPVTKQTIEQVMADAWNKLPARLLHAHYKNCGLVRGQDPYFDCPDPAGHQHGN
Ga0182746_1092900Ga0182746_10929002F010070MQMKQRGQPHLCAGLNTQYHLTCIEVLESVLRADKAVVYWLTNGCMHMDSEGPEIVRPCPAINICSWVPNLFADSPSMVRDGVESLCPKDPKFLPTIPQEFRNLLATPDSSPADNAAVNGPVQPITQGV
Ga0182746_1102976Ga0182746_11029761F051903FLDETHKREGDVQNYTIVLPGEPSYIQSANTSSYATRFDMIACCSGTTTLPPIIYSPQQRVRGVNTAMLLQYIRDILAQAAGALDTYPLLLLLDRSGIHNEEKILQELHDWGCQELTEVTKIPTASAKRLSPLDNSLFNVWRQRALSSGSLTLANIKQRMGDAWNSLTTADIRAQYRHCGLMRNQDVYFDCPNPAAHRHGR
Ga0182746_1145090Ga0182746_11450901F034190WCFINAVLGLMSPSATHPCPICIVSKNNLLSSSRYRTPADRHSIDHTHSPLLSIPPERIVPTPLHLFLGISNRIILDAFSELLGKERVETALKSITTVHSAGCGGAADLYDLNGQEISKWIKKECSATLLSAAAASSPIPAATSASHSILSRWLQQLHHCLLRSDVWTAADIDAWRSVVSDIHQHWRAETSIAAFPKLHMLHHSVDFAERHRFLGRASEAQIESFHASFNDLFHKQHRNQAGNTAERLRRCLADSSLRAVQSVLI
Ga0182746_1152133Ga0182746_11521332F013935LLHQLLGFLRIVPEIGVFGEVVQFGETCGCSIDVKDASSAARLTA
Ga0182746_1153547Ga0182746_11535471F051903GEPPYIETSATSSYAPRYDMIACCSGTTALPPIIYSSKERGKGVTTEMLLAYIRDLLAQAAGALDVYPLLLVVDRSPIHSTERMQQEFRDWGCQEMTEVLLMPPSAAKRLSPLDNSLFNVWRQRVLQGGPLTKTNIKQRMSDAWAAITKADIQAQYRHCGLMRHQDVYFDCPAPALHKHA
Ga0182746_1160265Ga0182746_11602652F031088MKLNVLAIALAATAFGAFGANAQTVIEERRDPAVVIEHDKPASSVTVEKREGLIGEKKTITKETTGSAGCDSKTVHREGIGGSTTVKKTNCD
Ga0182746_1179534Ga0182746_11795341F034190LHSSRHRTAADKHSRAAGQQPLLTIPPERIVPTPLHLFLGISNRIILDAFSELLGKERVETALKSITTVHSAGCGGAADLHDLNGPEISKWIKKECSATLLAVAAASSAVPAATCASHSILSRWLQQLHHCLLHSDDWKAADIDAWRSVVSDIHCNWRAETSIAAFPKLHMLHHAVDFAERHRFLGRASEAQIESYHASFNTLFHKQHRNQSGNTAERLRRSLADSTLRAVQ
Ga0182746_1184010Ga0182746_11840101F052044MADADRLGKIATIGQDLITTQLTMAMQTPSQALEGTWVLGYCFGIFDALAQQADLDDGAEVFSLVTLGFLGLFADPADPEAAAFIRRSLDRQDNPRFQEGAAAGGTDVFVWVADRTKAPNALFEHLGR
Ga0182746_1204323Ga0182746_12043232F019939AFTSPADEQRIVSLVETAASADARAQALPTVFDSGREASRRFRHTDILAHRAGRARFTQVRANQPGQDTDATRAAYLRLYSTVYASFETLCAKRMPLAYLPYCNDMLKSYRFFAQGVNYGDRAEQICMNGNFCDSRSYIRRVTHNTYQREPGDA
Ga0182746_1233498Ga0182746_12334981F036409DLTLGVVTVHDFGKFHTLLFVHYDPETKKWKGPVVEAPFNDWNIDGGCPNFDAAGNIMIWSAGYDRGPDVITGGESGAGGVYDLYWLPTSEVIDYYKKAAGIG
Ga0182746_1240658Ga0182746_12406581F050234AVVIPPWPLLVLMLEFPVIMALLDCWQRPGEHFGEGAEDRRAWLRWLLVAVVTIPVLLGYGIVLGYYFAVVRRNSPAAPR
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