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 3300025974

3300025974: Wetland microbial communities from the San Francisco Bay, California, USA, that impact long-term carbon sequestration - Tolay_CordA_D2 (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300025974 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0111376 | Gp0101391 | Ga0210118
Sample NameWetland microbial communities from the San Francisco Bay, California, USA, that impact long-term carbon sequestration - Tolay_CordA_D2 (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size117868758
Sequencing Scaffolds27
Novel Protein Genes29
Associated Families25

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria2
All Organisms → cellular organisms → Bacteria5
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → unclassified Desulfobacterales → Desulfobacterales bacterium3
Not Available10
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → unclassified Syntrophobacterales → Syntrophobacterales bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium1

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 → Aquatic → Marine → 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)Unclassified
Earth Microbiome Project Ontology (EMPO)Free-living → Saline → Water (saline)

Location Information
LocationUSA: San Francisco Bay, California
CoordinatesLat. (o)38.15012Long. (o)-122.438774Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005055Metagenome / Metatranscriptome413N
F012606Metagenome / Metatranscriptome279Y
F016805Metagenome / Metatranscriptome244N
F040630Metagenome161Y
F042645Metagenome / Metatranscriptome158Y
F042907Metagenome / Metatranscriptome157Y
F044506Metagenome / Metatranscriptome154Y
F045180Metagenome153Y
F045765Metagenome / Metatranscriptome152N
F051215Metagenome / Metatranscriptome144Y
F056621Metagenome137Y
F058158Metagenome / Metatranscriptome135Y
F070125Metagenome / Metatranscriptome123N
F073570Metagenome120Y
F074897Metagenome / Metatranscriptome119Y
F077317Metagenome / Metatranscriptome117Y
F078289Metagenome / Metatranscriptome116N
F082881Metagenome / Metatranscriptome113Y
F087322Metagenome110Y
F087950Metagenome / Metatranscriptome110Y
F088283Metagenome / Metatranscriptome109Y
F090481Metagenome / Metatranscriptome108N
F092080Metagenome107Y
F099322Metagenome / Metatranscriptome103Y
F099323Metagenome / Metatranscriptome103N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0210118_1000999All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria3124Open in IMG/M
Ga0210118_1004299All Organisms → cellular organisms → Bacteria1821Open in IMG/M
Ga0210118_1005832All Organisms → cellular organisms → Bacteria1619Open in IMG/M
Ga0210118_1006839All Organisms → cellular organisms → Bacteria1521Open in IMG/M
Ga0210118_1007786All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → unclassified Desulfobacterales → Desulfobacterales bacterium1444Open in IMG/M
Ga0210118_1012912Not Available1179Open in IMG/M
Ga0210118_1015503All Organisms → cellular organisms → Bacteria1092Open in IMG/M
Ga0210118_1019533Not Available988Open in IMG/M
Ga0210118_1021796All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium942Open in IMG/M
Ga0210118_1023196All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria916Open in IMG/M
Ga0210118_1027232Not Available853Open in IMG/M
Ga0210118_1034095Not Available771Open in IMG/M
Ga0210118_1034623All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → unclassified Chloroflexi → Chloroflexi bacterium766Open in IMG/M
Ga0210118_1043340All Organisms → cellular organisms → Bacteria692Open in IMG/M
Ga0210118_1045339All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → unclassified Syntrophobacterales → Syntrophobacterales bacterium677Open in IMG/M
Ga0210118_1045348All Organisms → cellular organisms → Bacteria → Proteobacteria677Open in IMG/M
Ga0210118_1055392All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → unclassified Desulfobacterales → Desulfobacterales bacterium617Open in IMG/M
Ga0210118_1055831Not Available615Open in IMG/M
Ga0210118_1056581Not Available611Open in IMG/M
Ga0210118_1056843All Organisms → cellular organisms → Bacteria → Proteobacteria610Open in IMG/M
Ga0210118_1057506Not Available606Open in IMG/M
Ga0210118_1058921Not Available599Open in IMG/M
Ga0210118_1069207All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium554Open in IMG/M
Ga0210118_1070138Not Available551Open in IMG/M
Ga0210118_1073874All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium537Open in IMG/M
Ga0210118_1076396All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → unclassified Desulfobacterales → Desulfobacterales bacterium528Open in IMG/M
Ga0210118_1081153Not Available512Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0210118_1000999Ga0210118_10009992F088283MKNRVLLFVPFLAACAGCATDADVAGMYVPSCVAFEGNTIELTDQRFTWDKFTDEVTVDAAGNEVDPFPGFPVRGTYTIENDVLHLTTDVGDLAALLHLVRRPGQVYLLTVTEFEAWQKGGTVPNCALLLGAGE
Ga0210118_1004299Ga0210118_10042991F042907MTDQMIAEADEKLYNDLREEPCIVCGDPYLYVLGSYTPDEPKRSIKRDYKAPVLYYTLCEKCFNKGRIPTARIEAAYRSK
Ga0210118_1005832Ga0210118_10058322F056621MNDKERFILADKIQKKVQENLPHFQSIKRKDEIEKQLKK
Ga0210118_1006839Ga0210118_10068391F056621MNDKERFILAEKIQKKVQENLPDFQLIKKRDDIEKQLKETGNIE
Ga0210118_1007786Ga0210118_10077863F058158MIEKQKNYKSDFTKTEKDDLDIWELHVKEREQILAQIAKAARISRIRTWIELIFMLGFICYMLYDIYKDGDLDTIIKFLKA
Ga0210118_1012912Ga0210118_10129121F040630ILNFGHCNLPFDDAQGGESFDFAQDREPVERLVEPFDICVL
Ga0210118_1015503Ga0210118_10155032F042645MAKITDLDILELRNFFEEALSRAQSADKKQKMRLRRKIRDEVFLLQTWEKPTPKSIMSRWEERMQDALKVMPFGFKEELFKMLINIMSLRLTMGNRKKL
Ga0210118_1019533Ga0210118_10195331F099322MARRASKYGEGSVRMVLDGVSLIRYSDGAWCRVAPPSAHDLKDNWYRSSPSLLIRWLDAVGKVRPVKSNE
Ga0210118_1021796Ga0210118_10217961F082881GLEAVVGQLAPINVADQFEQGRARALPPGEDPRPRYWEHYADFHRVITQSLTDDELPHSFVEAFSRTYAQTRDELQAKRRERDDDSR
Ga0210118_1023196Ga0210118_10231961F070125CSGPLTSSGNASPVTTAEERRQWIEALQAYRDDSERLFALVASLANLLDEEMVVETMESVLGIVAVHDNDCVIFNDLAIRFGSDGRVKSVFRTIDGSGNGT
Ga0210118_1027232Ga0210118_10272321F073570VGILNTTLLQMPQNKVSVSSLTDAQADNKKTSHKYTIENDLIVYEKYDRHGKLISRVPWPPKPVAEKA
Ga0210118_1034095Ga0210118_10340953F087950MGSGIMQCWINGPATGRIDDKIKMAIILLKTNIPAFHHSVIPFLG
Ga0210118_1034623Ga0210118_10346232F051215VAVDRTQGSGSYGTSRTVLVGSLVGLVLAAIGVTVLIDKEGGQKLLASIYDMLGNAAGAEALRNGQGDQFFAKLLLAAIAMLVGVGGIWLLFTGVSS
Ga0210118_1043340Ga0210118_10433402F074897ALVSIPVLADELTQYVEEIDSHHRNAEFVDYDIAKRIADLCWKLLDALPDEPSEKQHRLTQLAINYFVLAEDAQDDNYSLAGFEDDLEVVTAVVKELGLAHLLDS
Ga0210118_1043757Ga0210118_10437571F090481MDTLAQLSHGAKLVLGAAIAFLIVSFFSWFDYNGPGSEFAEAFGGDTGITMWHGVGWLAGLIAIGLVVWQALRIANIELELGVTPAMITAALAILMVIFTFIRFIDAPGVF
Ga0210118_1045339Ga0210118_10453391F044506MMKQWNSGIVGSGMMQCWINGPATGGIEDKIKMVNILLKTNNPSFHPSIIPFPGKIRRPQKTSIFSVGCRNSETLNHMV
Ga0210118_1045348Ga0210118_10453482F087950LINGPATGGIDDKIKMVNILLKTNIPSFHPSIIPFPEKIRRPKKSPYSQ
Ga0210118_1055392Ga0210118_10553921F045765VTYHSSKGENTTRIKIDDKLYDLLRKFCDKEGRRLKDFVEDALENAIYTDESIKILNAEIKSLKKKEAKYDYAFRRGFQKGFYISFCALHGQILLEPDDE
Ga0210118_1055831Ga0210118_10558312F092080MQDKRVTIRIPFEAWKALRELQTVGKISSIQQAAVTGINKLIESLNWGEEEMKGHQRSAAKSRVLNVLVKEKPLENWEDIHNERTEADANRS
Ga0210118_1056581Ga0210118_10565812F078289MKKTVIILVSLFIVFPLYGFNSLVRHEDIPKMRELGISQEVIQYFISNQTSSVSSEDVIKMKQSGLKNADIMSAIKSDLYRPEQKSSAMKEAELVAKLKESGMSDEAVLQFIQTVKSTRRVDSDGNVTKQHTNETQRTQY
Ga0210118_1056843Ga0210118_10568431F012606AEKPMATPERRTVTVLLTEMHLRKMIDDHLLKESEISDQAKVARVVQTLLDGALGLPERPWHDWDAWVKGLE
Ga0210118_1057506Ga0210118_10575061F040630LFGFLNFGHCDLPFDLAQGGGESFDFAQDREPVERLVEPFDICVLIFEIFITETRTQTPE
Ga0210118_1058921Ga0210118_10589212F005055RFLQTILMTASTRGFTFKPATINDVHELTSQMLDRGLLDFERVGQHPVLSLAMYIHEDDSYLIYGPDGSLYGAYGVSKDNAVWIQMTKQVKKNPRTTVRFGKALMEHINRPYLWTTIDIKNTDLINLARYLGFKVLRAFPDGPDNVYSIEIVRLWQQRHH
Ga0210118_1068275Ga0210118_10682751F099323LGHRLILDLAIIGSFIALAINPGSLGDIMRICGAIFLFNVLIGNYRIGDATEGHLVVLGIFLIMLLINGFMPDEMIHRRSFRYFLALPGMILAIHCFSKRTKPDSRTLLFYCSIAVLAVTIQFVAYHTVERVVNSGGLESYGLSGNMHHFGSFAGLILPVLFYFSTQIKGWLRLLCVAGVIAAFYL
Ga0210118_1069207Ga0210118_10692071F045180SPELTWSELAAFFVGWLVVAQAVFHLARRQRSVDTFLVVIAVVLVGRTFTSGNTLAVAELAAIALLLPVLVLMSRIEDRGRSALIAAALGTWLVAVALAPVLAESHRAVAELPEVGEYLRRNAPPASQLAGKAFSYVALAWLLAGTGLLPHVAAGVTVLFVLLLGLLHVGAVAPAYGWIDLVIA
Ga0210118_1070138Ga0210118_10701381F077317MEELLTKSADETIWYENEQPIKEFLESFRKAEILETDDQAEELSWIEIVNNSNQISS
Ga0210118_1073874Ga0210118_10738741F016805VDPFLTPLATAAIIAGVGALWRIDKRASIMDTRMALILEQITALRSDHKERLDDHERRIRTIEQK
Ga0210118_1076396Ga0210118_10763961F044506MGFGMMQCWINGSATGGSDDNIKMVNILLKTNIPSFHPSIIPFPGEISKSQKTSIFSVGCRNSETFKY
Ga0210118_1081153Ga0210118_10811532F087322VDLHALRLGLVLTVLFVLRMTQAGTGDVCFVFFSRRIFLGDDLRAAIDFEPRRALFK
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