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 3300026057

3300026057: Natural and restored wetland microbial communities from the San Francisco Bay, California, USA, that impact long-term carbon sequestration - WestPond_CattailA_D1 (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300026057 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)
Gs0111376 | Gp0116121 | Ga0208294
Sample NameNatural and restored wetland microbial communities from the San Francisco Bay, California, USA, that impact long-term carbon sequestration - WestPond_CattailA_D1 (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size90422490
Sequencing Scaffolds41
Novel Protein Genes44
Associated Families43

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available17
All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae2
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium4
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium ADurb.Bin1221
All Organisms → cellular organisms → Bacteria → Acidobacteria1
All Organisms → cellular organisms → Bacteria8
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → unclassified Syntrophaceae → Syntrophaceae bacterium PtaB.Bin0383
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → unclassified Desulfobacterales → Desulfobacterales bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiaceae1

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: Twitchell Island, San Francisco Bay, California
CoordinatesLat. (o)38.107536Long. (o)-121.649704Alt. (m)N/ADepth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001196Metagenome / Metatranscriptome749Y
F001417Metagenome / Metatranscriptome699Y
F001421Metagenome / Metatranscriptome698Y
F001471Metagenome / Metatranscriptome688Y
F003085Metagenome / Metatranscriptome508Y
F004548Metagenome / Metatranscriptome433Y
F004731Metagenome / Metatranscriptome426Y
F015537Metagenome / Metatranscriptome254Y
F017845Metagenome / Metatranscriptome238Y
F018023Metagenome / Metatranscriptome237Y
F019483Metagenome / Metatranscriptome229Y
F020719Metagenome222Y
F020726Metagenome / Metatranscriptome222Y
F022903Metagenome212Y
F025057Metagenome / Metatranscriptome203N
F025366Metagenome / Metatranscriptome202Y
F026576Metagenome / Metatranscriptome197Y
F029408Metagenome / Metatranscriptome188Y
F032706Metagenome / Metatranscriptome179Y
F033513Metagenome177Y
F034408Metagenome / Metatranscriptome175Y
F038290Metagenome / Metatranscriptome166Y
F040936Metagenome / Metatranscriptome161Y
F044576Metagenome / Metatranscriptome154Y
F046088Metagenome / Metatranscriptome152Y
F047253Metagenome150Y
F050693Metagenome145Y
F056818Metagenome / Metatranscriptome137Y
F060159Metagenome / Metatranscriptome133Y
F061612Metagenome / Metatranscriptome131Y
F064862Metagenome / Metatranscriptome128Y
F071378Metagenome / Metatranscriptome122Y
F073723Metagenome120Y
F074388Metagenome119N
F077462Metagenome / Metatranscriptome117Y
F077727Metagenome117Y
F079671Metagenome / Metatranscriptome115Y
F082744Metagenome113Y
F082883Metagenome / Metatranscriptome113Y
F083037Metagenome / Metatranscriptome113Y
F091541Metagenome / Metatranscriptome107Y
F092169Metagenome / Metatranscriptome107Y
F105313Metagenome / Metatranscriptome100Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0208294_1000248Not Available3523Open in IMG/M
Ga0208294_1000301All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae3373Open in IMG/M
Ga0208294_1001487All Organisms → cellular organisms → Bacteria → Acidobacteria → Acidobacteriia → Acidobacteriales → Acidobacteriaceae2200Open in IMG/M
Ga0208294_1001605All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium2146Open in IMG/M
Ga0208294_1001629Not Available2135Open in IMG/M
Ga0208294_1002465All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium ADurb.Bin1221860Open in IMG/M
Ga0208294_1003045All Organisms → cellular organisms → Bacteria → Acidobacteria1734Open in IMG/M
Ga0208294_1003967Not Available1567Open in IMG/M
Ga0208294_1004469Not Available1497Open in IMG/M
Ga0208294_1005106All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium1419Open in IMG/M
Ga0208294_1005943All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium1330Open in IMG/M
Ga0208294_1007211Not Available1225Open in IMG/M
Ga0208294_1008762All Organisms → cellular organisms → Bacteria1123Open in IMG/M
Ga0208294_1010608Not Available1026Open in IMG/M
Ga0208294_1013243All Organisms → cellular organisms → Bacteria923Open in IMG/M
Ga0208294_1013850All Organisms → cellular organisms → Bacteria905Open in IMG/M
Ga0208294_1014796Not Available876Open in IMG/M
Ga0208294_1015029All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae870Open in IMG/M
Ga0208294_1016552Not Available831Open in IMG/M
Ga0208294_1019822All Organisms → cellular organisms → Bacteria761Open in IMG/M
Ga0208294_1023013Not Available709Open in IMG/M
Ga0208294_1023054All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium708Open in IMG/M
Ga0208294_1025736Not Available671Open in IMG/M
Ga0208294_1026462All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → unclassified Syntrophaceae → Syntrophaceae bacterium PtaB.Bin038662Open in IMG/M
Ga0208294_1028629All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → unclassified Desulfobacterales → Desulfobacterales bacterium638Open in IMG/M
Ga0208294_1031192Not Available612Open in IMG/M
Ga0208294_1034857All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria580Open in IMG/M
Ga0208294_1035290Not Available576Open in IMG/M
Ga0208294_1036478All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → unclassified Syntrophaceae → Syntrophaceae bacterium PtaB.Bin038567Open in IMG/M
Ga0208294_1037873All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia557Open in IMG/M
Ga0208294_1039616Not Available544Open in IMG/M
Ga0208294_1040095All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → unclassified Syntrophaceae → Syntrophaceae bacterium PtaB.Bin038541Open in IMG/M
Ga0208294_1040145All Organisms → cellular organisms → Bacteria541Open in IMG/M
Ga0208294_1040335Not Available540Open in IMG/M
Ga0208294_1041657All Organisms → cellular organisms → Bacteria531Open in IMG/M
Ga0208294_1041881All Organisms → cellular organisms → Bacteria530Open in IMG/M
Ga0208294_1042265Not Available528Open in IMG/M
Ga0208294_1042747Not Available524Open in IMG/M
Ga0208294_1042937All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiaceae523Open in IMG/M
Ga0208294_1043319Not Available521Open in IMG/M
Ga0208294_1046641All Organisms → cellular organisms → Bacteria503Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0208294_1000248Ga0208294_10002485F061612MPRVIHQETMCCGHKRCPTIKVFEDGSIELSDDDTDLGSVGTIKLRPEAANRLAELLFEK
Ga0208294_1000301Ga0208294_10003016F083037VRDLVQNRIGQVGLGASATFYSKPAALDPVYGNNPVSFSVFLRLRPGRMSH
Ga0208294_1001487Ga0208294_10014872F029408MTVMGSALRKTRSFSLDPDLITEVERTKGPVSVSERVNHLLRSALEMEKKAQLSEEAAEFFRTTEDDREERRAYQKANLRTWSRE
Ga0208294_1001605Ga0208294_10016052F082744MNKFGVKPSRVTASAQGKILYGENDAAVMASESRVFEQAGYTVAMAAGRLAIEQALRSGKYDVFVLGHTLTKDDRHHLAYMAKKSGRDVQVLVLHASGKHPAVDIAIDSREGHDGVLKALASLMERKALALAV
Ga0208294_1001629Ga0208294_10016291F034408MAPHDESIRNLALYMPKLAYGMVVGVPRVPFVVDIPIQFSSSTVNAPPVVQNLDNNLTQDTIIERVSYNLFQQNTFPGSPFQSLYFNMLKQSGATGVGVQLQVFGGPKYVVSNQFVDLGNLADVLAVAWPNGWPLPKQSNVKVSAILTQTPVSVPFNVTLTLLGWQLLDKTIDDLSDQEARARLRKLG
Ga0208294_1001629Ga0208294_10016292F091541MSRSIVGKPSRKFAQDQEKTKRVAFGLGASPDAPGALGAAEKCLKCSFGNIPVIEEVVWTIPLPLTADEAQSTLGDTVNLLSGSSSVPGVASIDSTFLINGILQTDILAQGIGVHVFCEPMSFSTIGNAFLAPSTTVAPPPSPDVFTTNDLTQRAMGTTVDADGANFTPAVLEFGVDVWRAGWNFINAYQFQWKTSQRELVLNELAADVSYFGSFADAEASGTSEVAIIEFVAAINAQYRAKGSTTIFLPVNFRRVGSVTASSPTTANTGVFHPTRDFDLAPVTWGGLRWQGYGCRGQMYRPIESPCFLERGIPIGMLFVVQDAVHQAQMLQAVTLNNEPLGINVSPDENLSDTTSGVGASTMLEQTLDTTPTLSPQTVNVSRQIFKGGILKLAIKIKGWEMPGGWKAYCETNMPQIMSASKSG
Ga0208294_1002465Ga0208294_10024652F064862MPAIQVEISVAAGGSNSNLFSGSAFEYARGRQALSCGVVAAATGTFFTLQAGADIIVEESAPMVLTTMPIVPDHMYYNDIMEPFDRLRLSVRNPTGGAVIHRAIALLTPV
Ga0208294_1003045Ga0208294_10030452F046088MKGWYFFWMANLFLAGSAFAVITIIVFFRGLKDLREMFAKLRSEAESR
Ga0208294_1003967Ga0208294_10039672F003085MYNGGQRTRPGNWPQSRRYADIGRQQSCPRQGKWTGHHRGLRAGHVDKWVIRELGRASRLLGNHRRSKGDRRNQHPGVSWPTRPVDEPTPVQTGRDTKNASTQGTGRQPEADRPGRTKAVVATHSTAGQGRALARRRGEPKPKGPTITLAGAREGNAGHDVCAKERQEGL
Ga0208294_1004469Ga0208294_10044691F025057FRARSDRLGGGGSCSGSSAARGLRGEMGGLTLIDAT
Ga0208294_1005106Ga0208294_10051061F015537GAKMVQAITGSKPLYLRPPDWILPDDARRDLESRGYHILTISNLNAPALRDINSLDYLCAGAHPTQCPRAGLAANFLNQIEAREKHGIYTHIVAFHELTSTTAALPQIISTLKLKGYRFVTVKEYMRAAGQTDVKHATLKTPSYPGD
Ga0208294_1005943Ga0208294_10059432F001471MKRAAIVVALVLLALPATAKTYKSTYSVSCDQVWAAVKDTLSNAENYEVTANDDAQMSASYNVRHAAHVNVTGAVLQRTNKVSLIRQGATCEMHVVSNFSGWEHHDQGDFKKRVDEVLAKQANAKPAEAAKPEEAPKQE
Ga0208294_1007211Ga0208294_10072112F019483MANGQGTATVDFGAAPGSNEASVAVTGQAAISGTSKAEAYWMADDTTADHTANDHKYVPLFVELTCGTPSAGTGFTIYGRASEYMQGTFQCRWVWSD
Ga0208294_1008762Ga0208294_10087621F056818MFRSGKGMTSMNTRMYATQAADMAGNARVRGFQSCPVPVVFAAWSPISLGTTAAKHGRPRRLEVSHP
Ga0208294_1010608Ga0208294_10106081F018023VQRYCCPECALTFSVLAADRLPYRPLEGARLEAFFNTQAGIGSGPDPPPGQLEAGCLRRAWTRFQTRVSPLKEAFGLLIPSVMAGAAHLWEQMRLAKPTLAAILGFLAQSCNTSLLGDYRCLRLPS
Ga0208294_1012386Ga0208294_10123861F105313VLEVKTRRLLVAAGLTDFVREFPLAWHGRTYRFDFAFARRRTILETNGRRWHDDAKDYEHDNEKWSVPGRHGYRIVLATWEKITRDPNRLLGELTSTLAAAS
Ga0208294_1013243Ga0208294_10132431F025366MLASTVTPRQARSNVEAWFMYFGIEDVPSWITDKSIDTWVFWIAFVGVGVWGTHLYMRSNIVKGKLSILIREGEPWVQVDPGLDRWQAAQTGGSWYRYCIALVNSDDSTLRNVEVKLASLEKRPQSFHAIGSHLKLRHDRAGTTTFNVYPTKDPQCKDAMFVDVFSFFVGPAGCTFLRVTSLPEDTNPYIPVDKYDVKIMATSESGEMAIADVAFIPGPGQMPDFRLLKMQSFPGR
Ga0208294_1013850Ga0208294_10138501F004548PMLNVLDFSCFLNKFAAGDPYANCDNSTNPPVLNVLDFSCFLNKFAAGCSGC
Ga0208294_1014796Ga0208294_10147961F026576RATLLTVGALGLVLVAAAIAWSPVRRHHKLPAVVGE
Ga0208294_1015029Ga0208294_10150291F032706SIFQWVADSAATCLGPTRARVAEVRVSDPIPGRVCVPAAGHAARARQEVSRLVLYERKGDIGFITAKVNNVGEVYDEIDALLDEIERDKNIRTVAIFTLDGLFAALPIR
Ga0208294_1016552Ga0208294_10165521F038290MNTRVIDQLGGMKDFSGLRLRTASSRVSPIRRFRNFIELSGWDESIVRHGREIDVFCWLLAGGTAALLLPVCFLVLKG
Ga0208294_1019822Ga0208294_10198222F071378TEQQKKALAEISIVVYGEELTRLMIPELKNYLNGSTERDESAEQILKD
Ga0208294_1023013Ga0208294_10230131F050693AHMELVLEKAYLEVACEQMDETVEGFKKKHGGRPRTRRSSSTRS
Ga0208294_1023054Ga0208294_10230542F077727QMLLKPGAATKGDWMLGLLIGLVILTVVRFIPYLGALVHFGVICVGLGAFAWQLHRVLRSAITT
Ga0208294_1025736Ga0208294_10257361F047253MLEVRAFTTRATRMATLNDGTYDAFIIWAEQRDDGVALECTITSGELRGDVINIVTSSYGARDPLSLVGLPCTLIVAGDEIRVAQ
Ga0208294_1026462Ga0208294_10264621F079671EERRLLSVINNLPCNISLASYDYDDARTLTFKIQPLEPKWENENPYEEDLFRVNVGTGGMAWLEAVSEMFDDRAPLSTDMDEVKEQLLACMKEYVELGDRILAIRRAIPAERMHEAQKMAAFYSRIQAEQEVLAELQERWKMILGEIMEAKDLPRNQTLLDLLLVYNAVNRQELAVSDDGALYEKPLFEESYFTERAGLADEYYHNVLVYAFIGFLKTAG
Ga0208294_1028629Ga0208294_10286291F074388VDPTYFDEIPLADIMEAIENHGYLVVDEEHNRWSGFLCGREGQAMFDILSKDTGKLDNSDLRLSWYTMASGRYEVLAYVA
Ga0208294_1031192Ga0208294_10311921F001196MRRIHILACVTGSALLLTAMQSNAGAVTDLYRGGAFGLAWNANKDAIQAKYAGGKWDTDANGHARYCASSRQALLKLPAQHQSRELCFLIGSDGTLASATAVMDPSLPSLLAIVNRCRTTFGDFDSVVRDDRAIQSRSTAMLWTSDRPYVVRVESENDADGRPVVVTYTVADEANLFTAGASKVSNK
Ga0208294_1034857Ga0208294_10348571F001417LQRHLRRLPNEFKFSGMDGTQQAAIHQARVAVQHAATSMTFSGCGQDDRIEAIDRVEEELHTSHPNPTLMCQFLNSIARSLRAQPEARDACLAIEDAIGKAGMPSTWQSGI
Ga0208294_1035290Ga0208294_10352901F033513LRREEALEMSNLKETIKNRHGRDRWKDAMFIAGAVLLTALSIGSVTSKAQGHTTQHQWGVTMIETPELAR
Ga0208294_1036478Ga0208294_10364781F077462MDSDNRVKQRLSVGVTALLFLFACAGFACADVSKELKKISEEREKSVGYAKIAKVTFKKQQKKLTQAMLYYTDAKSIGNPMIQHLQTSLTSRSMKESQVREMLSDDVKRLVQVNEKFRAFIESGETSNRALPGLAAVAGMAGPITDACVNLWKEYKDADKKKVDNMVQVLDGYK
Ga0208294_1037873Ga0208294_10378732F017845MDGAVTLARPYAAPALAFAGEPAETEDVVWWVVVVGFAYAVALAWATWCRHNGGSAEISFGWTGFKVVCRS
Ga0208294_1039616Ga0208294_10396162F022903MSWALFWLASFALAFGGFTLISLVIAVRGVAEIRELFSALEEERRRKASR
Ga0208294_1039649Ga0208294_10396491F082883MASRSHFAAPLLLAVVVALIIYVSLYPFRFAVDGPSLPVALTELTWARAGRG
Ga0208294_1040095Ga0208294_10400951F044576FGLTKEVRCVNGNHQRKLPMENEQPLEEALLVEDLHSGEMIVERANGERWLLDAKKGWCPWGYEFEGKRVMLKFGPNTSFLVNDRGEQYEFWTERQIE
Ga0208294_1040145Ga0208294_10401452F040936MKGDVALKAAYIVTWVIQLSYMGYLWSRFRRLREEQKDLKREVGL
Ga0208294_1040335Ga0208294_10403351F020719MALDSHDRDGLFDDLRDEQEQEIALDHSLASAEHALAREACTIGRTFERAGIAFDPVTFVVMRIMEGSDDERIDPVECIELLVELGFLERSVALANDLLEEAA
Ga0208294_1041657Ga0208294_10416571F001421EAEYLRSKGTVARYTVEKGQPHRLETLAGANAGRLFDGFEETKKGCSSNGR
Ga0208294_1041881Ga0208294_10418811F004731QCHLSGGKHSCIERDIAIVPLEKIVTVLPQDTFGISKILTDYTVETTFRKLSDFSTEVAISHYYSTPTLKAKFLNLVARGKIARETRATLASAKAVIEATRQDNGRL
Ga0208294_1042265Ga0208294_10422652F073723VSGPSAMERVLLAFVRRFVALWVRPSILPDGLTERFLQGRPVVYALEKRSIIDLAVS
Ga0208294_1042747Ga0208294_10427471F092169MCAHCVSKADVVVGSIGFAGFLLKGPGEDALVAMGILPEPHPLAVGIRSVNFLRSLELDPGEVLGEDVVEAVDQVLAFPRQPVFRRTFRQAIALMLPLSIRSQRVFATR
Ga0208294_1042937Ga0208294_10429371F020726VTSAESDYLLRLAGLSLSFVGFSAVVVTLRGALGGEVSERHLRLVRLYIEGGLLVTALALVPTLLNLLHIPDTVTWPLSSAAAASIFTFLLMVQFRRRRTVEPGRFPAWVVIVYAVSTVAVVGLWLNVAGI
Ga0208294_1043319Ga0208294_10433192F004548VLDFGCFLNRFAAGDTFANCDGSTTVPVLNVLDFGCFLNRFAAGCS
Ga0208294_1046641Ga0208294_10466411F060159IIHSQFGGQIFGFDIDQNGTEGVLSESQRVGNHVVAAVETFDQRTGKILSVVSKTETQDDFVTLGVVGNGVGLIDHEILSSLFRVTRKFQVINPLGANQFTGSWTPPLGLQDIIMPGGVSRSQGVSNVAVFVYDNSGHFKPKVFSSNVAANTFGPVVTVTDANNFGS

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