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 3300026040

3300026040: Natural and restored wetland microbial communities from the San Francisco Bay, California, USA, that impact long-term carbon sequestration - MayberryNE_TuleA_D2 (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300026040 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)
Gs0111376 | Gp0116082 | Ga0208144
Sample NameNatural and restored wetland microbial communities from the San Francisco Bay, California, USA, that impact long-term carbon sequestration - MayberryNE_TuleA_D2 (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size91546494
Sequencing Scaffolds38
Novel Protein Genes42
Associated Families42

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available13
All Organisms → cellular organisms → Bacteria5
All Organisms → cellular organisms → Bacteria → Proteobacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria1
All Organisms → cellular organisms → Bacteria → Acidobacteria2
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium6
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium3
All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → Gemmatimonadetes → Gemmatimonadales → unclassified Gemmatimonadales → Gemmatimonadales bacterium3

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameNatural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Wetlands → Unclassified → Natural And Restored Wetlands → Natural And Restored Wetland Microbial Communities From The San Francisco Bay, California, Usa, That Impact Long-Term Carbon Sequestration

Alternative Ecosystem Assignments
Environment Ontology (ENVO)terrestrial biomewetland areasoil
Earth Microbiome Project Ontology (EMPO)Free-living → Saline → Water (saline)

Location Information
LocationUSA: Antioch, San Francisco Bay, California
CoordinatesLat. (o)38.052509Long. (o)-121.76873Alt. (m)N/ADepth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002062Metagenome / Metatranscriptome597Y
F002521Metagenome / Metatranscriptome552Y
F003710Metagenome / Metatranscriptome473Y
F004159Metagenome / Metatranscriptome450Y
F004784Metagenome / Metatranscriptome423Y
F006289Metagenome / Metatranscriptome377Y
F006314Metagenome / Metatranscriptome376Y
F007326Metagenome353Y
F008098Metagenome / Metatranscriptome339Y
F008145Metagenome / Metatranscriptome338Y
F010067Metagenome309Y
F012278Metagenome / Metatranscriptome282Y
F014243Metagenome / Metatranscriptome264Y
F017881Metagenome / Metatranscriptome238Y
F018536Metagenome234Y
F021486Metagenome / Metatranscriptome218Y
F025062Metagenome203Y
F025964Metagenome199Y
F026848Metagenome / Metatranscriptome196Y
F027235Metagenome / Metatranscriptome195Y
F028732Metagenome190Y
F034408Metagenome / Metatranscriptome175Y
F036159Metagenome170Y
F041267Metagenome / Metatranscriptome160Y
F041457Metagenome160Y
F042046Metagenome / Metatranscriptome159Y
F045310Metagenome / Metatranscriptome153Y
F054771Metagenome139Y
F055037Metagenome / Metatranscriptome139Y
F055698Metagenome / Metatranscriptome138Y
F059254Metagenome / Metatranscriptome134Y
F059323Metagenome134Y
F061612Metagenome / Metatranscriptome131Y
F069627Metagenome / Metatranscriptome123Y
F075384Metagenome / Metatranscriptome119Y
F085179Metagenome / Metatranscriptome111Y
F085478Metagenome / Metatranscriptome111N
F086537Metagenome / Metatranscriptome110Y
F086923Metagenome110N
F087632Metagenome110Y
F091541Metagenome / Metatranscriptome107Y
F106176Metagenome / Metatranscriptome100Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0208144_1000003Not Available20522Open in IMG/M
Ga0208144_1000110All Organisms → cellular organisms → Bacteria6983Open in IMG/M
Ga0208144_1000961All Organisms → cellular organisms → Bacteria2983Open in IMG/M
Ga0208144_1001487All Organisms → cellular organisms → Bacteria → Proteobacteria2427Open in IMG/M
Ga0208144_1001545All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria2389Open in IMG/M
Ga0208144_1002148All Organisms → cellular organisms → Bacteria2055Open in IMG/M
Ga0208144_1004184All Organisms → cellular organisms → Bacteria → Acidobacteria1494Open in IMG/M
Ga0208144_1004551All Organisms → cellular organisms → Bacteria → Acidobacteria1440Open in IMG/M
Ga0208144_1005389All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium1327Open in IMG/M
Ga0208144_1008595All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes1062Open in IMG/M
Ga0208144_1009819All Organisms → cellular organisms → Bacteria992Open in IMG/M
Ga0208144_1013357All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes859Open in IMG/M
Ga0208144_1014335All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria831Open in IMG/M
Ga0208144_1017793All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria753Open in IMG/M
Ga0208144_1017844All Organisms → cellular organisms → Bacteria752Open in IMG/M
Ga0208144_1018089Not Available747Open in IMG/M
Ga0208144_1018131All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium746Open in IMG/M
Ga0208144_1018858Not Available734Open in IMG/M
Ga0208144_1019114All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → Gemmatimonadetes → Gemmatimonadales → unclassified Gemmatimonadales → Gemmatimonadales bacterium730Open in IMG/M
Ga0208144_1019398Not Available725Open in IMG/M
Ga0208144_1020653Not Available705Open in IMG/M
Ga0208144_1022064All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium685Open in IMG/M
Ga0208144_1023021All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium672Open in IMG/M
Ga0208144_1023108Not Available671Open in IMG/M
Ga0208144_1025289Not Available644Open in IMG/M
Ga0208144_1026159All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium634Open in IMG/M
Ga0208144_1026358Not Available632Open in IMG/M
Ga0208144_1027088Not Available625Open in IMG/M
Ga0208144_1030620All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → Gemmatimonadetes → Gemmatimonadales → unclassified Gemmatimonadales → Gemmatimonadales bacterium592Open in IMG/M
Ga0208144_1031229All Organisms → cellular organisms → Bacteria → FCB group → Gemmatimonadetes → Gemmatimonadetes → Gemmatimonadales → unclassified Gemmatimonadales → Gemmatimonadales bacterium587Open in IMG/M
Ga0208144_1031514Not Available585Open in IMG/M
Ga0208144_1033516Not Available569Open in IMG/M
Ga0208144_1036083All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium551Open in IMG/M
Ga0208144_1037696Not Available540Open in IMG/M
Ga0208144_1040929All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium521Open in IMG/M
Ga0208144_1041414All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium518Open in IMG/M
Ga0208144_1042517All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium512Open in IMG/M
Ga0208144_1043860Not Available505Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0208144_1000003Ga0208144_100000323F091541MARTSIVSKPQHRYGDSQAKVRRVPFGLGEAPGTVGAAEKCLRCSFGNIPVVEEVVWTIPLPLTASEALATFGETVNLLSGSSSVPGVASIDSTFLINGILQTDILAQGIGVHVFCEPMSFSTIGNAFNAPNAPLGSSPPSPDVFTLFDIAAGALGPDINTDANDPNFFPAVFEFGGPVWRAGWNFINAYQFQWKTSQRELVLNELAADVSYFGSFADAMASGTSEVPIIEFVALVNAVYRSKGSGTIFLPVSFRRVGSVTTDNPVAGGTNVGIFHPTRDFDLAPVTWGGLRWQGYGCRGQMYRPVESPCFLERGIPIGMLFNSQDAVHQAQMMEALTIDNEPFGTNVSPDENVGGATSGGGGTATMLEQTLDAVPVYAPQIVNVDRQIFKGGILKIAIKIKGWEMPGGWKAYCAQNMPQVLSPAPASA
Ga0208144_1000003Ga0208144_100000324F034408MQPKNQNVKNLAIYSPRIAYGMIVGVPRVPVVVDVPIQFSSSTVNAPPVEASFDNNLTQDTMIERVSFNLFQQNSFPGSPFQSLYFNQLKQSGQTGVGINMQVFGGPKYAINDGFTDLGNLVDVFATTWPEGWPLARQSNVRVRAILTQTPTSVPFNILITFLGWQFLDKSIDDLSDEDCRARLRKLGIETPEVASLLKA
Ga0208144_1000003Ga0208144_100000330F061612MKLIHEETMCCGYKRCPKIRIFEDGSVEISDDDPQEGSVGTIKLKPRTADRLVELLSERM
Ga0208144_1000110Ga0208144_10001104F085179MRILISKRKKAKSLREIAIFLLLTYFAMGAGLVDSSVLCLGEDGHLAIESAASCAYCGVRALLPVPPESLNLEANPAPGCGPCQDFSIASGREFPSIALPSPPGSARGDLAFPSMEPAEGSRTSIASASSVSVPLEIPDPIALHARTVALLI
Ga0208144_1000961Ga0208144_10009613F014243MKELKLDVQALEERIAPSVIGTGGYDGQPGNQCNAGQNPSGSANPEGTANPEGTSS
Ga0208144_1001487Ga0208144_10014873F021486MARIAEERLDAVREYLHHGFPDWALAERWDGEHEAHTFLLKKPREPLHLLKVSRAVLDDCGPRKLTGLLEGRQVAHALRKAEHHRLMLTARGLDPI
Ga0208144_1001545Ga0208144_10015453F086537VLSGNDEGGGELLAQWLKEAGRRAQSKGKASEGAASDADDTFNSPASLHRYLEELAGRKLQTHAEVLAFLKEVAGGQPQGHRDHERRRMVREVALIVLLAISYLHFYYWEVQLQIAALKGVPVLVPAPTAQPSKIRS
Ga0208144_1002148Ga0208144_10021482F002521MDAVKRYKFLLLLSIALNLIVGVIIFVSPDSFTRFTGQPEAFPKAWPRHWGMQLWAIDFLYLPGYWDPRTHRWPNWCGIVIRLTFSLFFFSQGDGFTPMGIYDGLSGLILLATYLPVDRSRARKA
Ga0208144_1004184Ga0208144_10041842F087632MPRVLVATSNAGKLRDFAGVAALHGVQVEGVPDLDSLPP
Ga0208144_1004551Ga0208144_10045513F054771EDLNLDELKRRLKEGDYLEISTGGGAYEVWAEPFASPPAVYYEGEQHPIAELDRIADKIMGELRKGEIRCRWVADD
Ga0208144_1005389Ga0208144_10053891F041267QGYLEALNKIDIASGPNSPCASLAARTERQTATAGKVSGFELVSGLEKFYSDPANVQVPIGNAIRIYLLQASGKDQTTIQELIETARVLGATAARRPQQ
Ga0208144_1008595Ga0208144_10085952F002062VAGVQARLKSEHQRKYPDLTSSGWYDVAPIFPGVTQRMVNMAGERLTRLATPRGYVIIRADHLDFRPVPRSAHESEPIG
Ga0208144_1009819Ga0208144_10098192F008098MRFILGVVVGAGLTLGSAYLHDTGRVKVGPPQPIVNWDTLVGMLGR
Ga0208144_1013357Ga0208144_10133571F045310VRKTREQVWRELDALGEDQVRERLAAKPTEVEEPALVHEWLLRQERVNSALADTSSQIAAREAGLGGSVKRVVGSAVLLGVAAVALGFLLARRKH
Ga0208144_1013357Ga0208144_10133572F026848MMRSLLLVLLLLPTLARSVVAQSDRWQLTLDDDQYVWDIRLVRLEGDSLVIRQSDSLVRVPLGHVNEVRLIRGARVEVTGGAATAGAMSALMGGDDEIYDLAPLEP
Ga0208144_1014335Ga0208144_10143351F069627MDLTDEDAFPIYMRISDKVLHLRRLGMTYTNIAEHLGINPWMAKKAVRWGNVQKA
Ga0208144_1017793Ga0208144_10177931F059254MKVLATRRYPGPAFDELDDVEVAALESLTDSRPGIEALVAGNETV
Ga0208144_1017844Ga0208144_10178441F055037GLDATFQGSSGYERAERHVEGLQRSGVRYSFRQELGGAWTIRFGPISASEVSTALTAFVQ
Ga0208144_1018089Ga0208144_10180891F085478MTTCISNIMEKQCNKFNEINKLSIVFGQVLIIMFLISFLYSHNNVYAQSETPVNAESIQVIKDPEKEVPSLTVSLGDQEVEMDPFMYSQINFTNKIKGSQLNDSEDNIVTKISPAKLYETQSDIDTKLNLKHGDKITISYEKQPLTIKAYLIDYDTEDETEIYPIKQIDLSTFSIPTNSPAGLK
Ga0208144_1018131Ga0208144_10181311F027235MDSYVVRIYRRDGKKFRILIGTVEAAGSGRKMAFSNNEELWEILRRSRLRKEVMSAGEVPDVEGPAEGARQTKPTIEP
Ga0208144_1018858Ga0208144_10188581F012278KSLICIYTNKDKNEFAIGLKEDENFRAMTKADEFYTRFVDAFDQLIDKNSIDWEHELKNWIAAAKKNETIFVEVDLTGHNEVSDRKLSE
Ga0208144_1019114Ga0208144_10191141F025964QNLEIKYPFADTKPPFDFALGRPNGEVWLQRPRAEEDAPHTYDVFDRKGSWQRSIEFPKGAALAGFGAKGAIYASIKESDGGRTVGRFRFR
Ga0208144_1019398Ga0208144_10193981F006314MTSSKLQAALDELERLNETVRGYTARNGKLPSPDSDAGRAVSLLETFAEELKRLNIGRLEYATL
Ga0208144_1020653Ga0208144_10206531F059323MFGTTLTTRWNWQKLFSYGEVVCFISAWAVGLLVAMQGEQPHHDRIHTRNFASATDSLAINTNLQR
Ga0208144_1022064Ga0208144_10220642F003710MLIKGMTAEEIRVLQEFRRIGVESLSLDAIKAIKHPAGGGEAPARSLVIKGYLEADPQNGTFSLTPRGKEFLAYEPKPEFEETSGGSAEAAAK
Ga0208144_1023021Ga0208144_10230212F086923MKAMELTEELVEALEGVAFLDPPLFDEAQLPLQQRVVDKLADMMYASDMVLDLFRDERYSVPPHLLAMEPEVQRLYDDINSLMKRLAD
Ga0208144_1023108Ga0208144_10231082F004784MEDNKLKFVVRGRKEGDKFVLEGITNYILQNLDSFDDKTIIVTFEKPVSTNTIKLDTGNLFN
Ga0208144_1025289Ga0208144_10252891F018536IQICSIYTEGKYMKNSVIAIQSFVIVTIVYALLVPVFFEMDNDFGEEKNFVDDGNYETTYSQQLVDSECQSPCPSSAEMCIAMCA
Ga0208144_1026159Ga0208144_10261592F010067MTDERSDEARKTFEMLSNEYAQALHAFKAIEDQSTTLMLLGVGDDLRGFIDQFIEMAVKMKQVAEEKGEPHFAEWFGELIEKAEALRGAIPKR
Ga0208144_1026358Ga0208144_10263581F025062MHKSILTFGLLASSLVMLVVMPFLNNNNSFLANTAMAQGYYDDDSYSTYPTDDNKYECQTGPLEGFFVSSVEFCKHVNFNDKDDRKDNRTGTQGPPGPAGPQGIQGIQGP
Ga0208144_1026407Ga0208144_10264072F036159MAEQPVPSRQRFRTLASESAIAIEADDLLVLARRYAEQGMYDESIHLYEMAEKLKPGSVALRINLARVRDQKRAAEEARYASVRQEVDAERARDEIDSTQYVGLAQYYIAKDETAKAIELLEIAKLKTPNNYRPFEVLGRLYFSQGEWDPA
Ga0208144_1027088Ga0208144_10270882F055698MRCQNSTDTNRRCERTASKIAIVKDVIEKQSKFWICDDCFNEKLYNNKSFKDNLIKVVEVNSKKXVSLLLIAKYF
Ga0208144_1030620Ga0208144_10306202F006289RSHHRRRLAFLNPPIERRRPRIQMEDYAARHSIDHTLDRKAELRRLAPGNPQAAARYHQLLTYELHGLRELVATLQATAGGRDLHECLAESRTEIERLEIEVAWCASLPTMESAADAR
Ga0208144_1031229Ga0208144_10312291F041457PPRGRIPPDDGEELPHPGERLPFETPEAVLEPQPGTDPAAERRGRPGRPHLVVVTTRAATPGDQAPPGTVLLSRFWHPALHRWSENSFESLEHAMHLFLNESGWVLRQQQRLEGPHAHELIFEARREDFSRPSTEEMLHDVGLTAEDVADMMDRVDRENGGPE
Ga0208144_1031514Ga0208144_10315142F075384MSKHDEQSRTKTPEQQPKKPVPSKDVELGVEELEEKIAPMKFNA
Ga0208144_1033516Ga0208144_10335162F106176MGQLDQTGLLTLQELMITALATAETVAKILIEKGIVTKKEFDRKLFSERANCQAILQQVSGTSVDA
Ga0208144_1036083Ga0208144_10360832F004159MQPGNEDSPLHEKASKLADDFAEHGPEAILDEIENLLPEAWREHIARFPIAAILLGFGVGIWLGMKKGDELIAAGTSFVTSAAMANVNQVLDRFGSQNA
Ga0208144_1037696Ga0208144_10376961F028732VGPLLMSIGDLLHPEERMLPVEQIAAVVDHASRWYIAHLLLFVGILLFIPGFLGLTALTALLRPVVGYTARILIMIGTAGFASIVTGEMLASRLVLDGVGTAAPISLWTNLFMGPVGAAVGPAVLAFFVGTIMFAIPLLRGSKRLRYPVALMVIGVLFVLAEILTARVVFSQIGNIVVLC
Ga0208144_1040929Ga0208144_10409291F007326MQKVNLGSVIEQAITRVTQNRIGEKPAVFVTLSPALTQVPWKDSALKQFLQFFLYESLLTSDANAAVEISLRRRSLLKDLTAFVGIQPSYWVQLRISGRGLKVAEKLVEDLFDEVGYRCEEWVGVEGSSARLGIFGAIDAPKLKMVICLESSRQRLKCDLLLP
Ga0208144_1041414Ga0208144_10414142F017881VALFFHSDDVDQLIPFKEAVQITEFALRDLVSPKGVNAPRKRLNLHRDIGEASFDTVLNIYAGGSANYGAIGAQVALHRKAIAGNTQQRPPFNPDQTELALIYDTNTGSLLGIMAHRPR
Ga0208144_1042517Ga0208144_10425171F008145VVDQQLQAALQSVQADVNAITFLPHIKKLIGELEHDLVPDTKPAAADASSLKNAIKTVERGKSQVDILNALLEEAVRFGSRAAVLILRGETFSGWKGLGFSTHGGNDEAVKRFNAAPGLVPQLDQVLRHEHVVVWDGNNLSSRLGVSGSAKAILVPMVIKDKVAAAVFVD
Ga0208144_1043860Ga0208144_10438601F042046MRNLFALLALIGIAGVVLGVLSLLHTPYGQSGPLPFTVEYTGGPGSIIAGFTLLAASLYLRTAWRRRD

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