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 3300009060

3300009060: Salt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG SF2_C_D2_MG



Overview

Basic Information
IMG/M Taxon OID3300009060 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0114514 | Gp0125958 | Ga0102962
Sample NameSalt pond soil microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG SF2_C_D2_MG
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size390551898
Sequencing Scaffolds41
Novel Protein Genes43
Associated Families35

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon3
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfosarcina → unclassified Desulfosarcina → Desulfosarcina sp.1
All Organisms → cellular organisms → Bacteria → Proteobacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Myxococcales1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → unclassified Desulfobacteraceae → Desulfobacteraceae bacterium2
Not Available11
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria5
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfosarcina → Desulfosarcina variabilis1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium2
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobulbaceae → unclassified Desulfobulbaceae → Desulfobulbaceae bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Olavius algarvensis Delta 1 endosymbiont1
All Organisms → cellular organisms → Bacteria2
All Organisms → cellular organisms → Archaea1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → unclassified Bacteroidetes → Bacteroidetes bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → unclassified Desulfobacterales → Desulfobacterales bacterium2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacterales incertae sedis → Candidatus Desulfatibia → Candidatus Desulfatibia profunda1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameSalt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration.
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Wetlands → Unclassified → Soil → Salt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration.

Alternative Ecosystem Assignments
Environment Ontology (ENVO)terrestrial biome → wetland area → soil
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Soil (non-saline)

Location Information
LocationSouth San Francisco, USA
CoordinatesLat. (o)37.4973Long. (o)-122.1295Alt. (m)N/ADepth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004928Metagenome / Metatranscriptome418Y
F007072Metagenome358Y
F008223Metagenome / Metatranscriptome337Y
F024001Metagenome / Metatranscriptome208Y
F024682Metagenome / Metatranscriptome205Y
F025653Metagenome / Metatranscriptome200Y
F031307Metagenome183Y
F032166Metagenome180Y
F037736Metagenome / Metatranscriptome167Y
F041201Metagenome / Metatranscriptome160Y
F042460Metagenome158Y
F044506Metagenome / Metatranscriptome154Y
F044508Metagenome / Metatranscriptome154Y
F045765Metagenome / Metatranscriptome152N
F048318Metagenome / Metatranscriptome148Y
F048676Metagenome / Metatranscriptome148Y
F053305Metagenome / Metatranscriptome141Y
F054044Metagenome / Metatranscriptome140Y
F054047Metagenome / Metatranscriptome140Y
F057781Metagenome / Metatranscriptome136Y
F059980Metagenome / Metatranscriptome133Y
F059981Metagenome / Metatranscriptome133Y
F075754Metagenome118N
F081352Metagenome / Metatranscriptome114Y
F084253Metagenome112Y
F084254Metagenome / Metatranscriptome112Y
F085724Metagenome111Y
F087210Metagenome / Metatranscriptome110Y
F087679Metagenome110Y
F087950Metagenome / Metatranscriptome110Y
F090406Metagenome108N
F095489Metagenome105Y
F098287Metagenome104Y
F099324Metagenome / Metatranscriptome103Y
F101186Metagenome102N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0102962_1022088All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon1891Open in IMG/M
Ga0102962_1022122All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfosarcina → unclassified Desulfosarcina → Desulfosarcina sp.1889Open in IMG/M
Ga0102962_1025213All Organisms → cellular organisms → Bacteria → Proteobacteria1753Open in IMG/M
Ga0102962_1030729All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Myxococcales1571Open in IMG/M
Ga0102962_1031979All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → unclassified Desulfobacteraceae → Desulfobacteraceae bacterium1534Open in IMG/M
Ga0102962_1038996Not Available1372Open in IMG/M
Ga0102962_1041063All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria1334Open in IMG/M
Ga0102962_1045619All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → Desulfosarcina → Desulfosarcina variabilis1258Open in IMG/M
Ga0102962_1047778All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium1225Open in IMG/M
Ga0102962_1060092Not Available1078Open in IMG/M
Ga0102962_1066581Not Available1018Open in IMG/M
Ga0102962_1071782All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes977Open in IMG/M
Ga0102962_1077564All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium937Open in IMG/M
Ga0102962_1078535Not Available931Open in IMG/M
Ga0102962_1078707Not Available930Open in IMG/M
Ga0102962_1083829Not Available898Open in IMG/M
Ga0102962_1086947All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria880Open in IMG/M
Ga0102962_1087516Not Available877Open in IMG/M
Ga0102962_1087734All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobulbaceae → unclassified Desulfobulbaceae → Desulfobulbaceae bacterium876Open in IMG/M
Ga0102962_1101939All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Olavius algarvensis Delta 1 endosymbiont807Open in IMG/M
Ga0102962_1114166All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon759Open in IMG/M
Ga0102962_1114983All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria756Open in IMG/M
Ga0102962_1130294All Organisms → cellular organisms → Bacteria708Open in IMG/M
Ga0102962_1145068All Organisms → cellular organisms → Archaea → TACK group → Candidatus Bathyarchaeota → unclassified Candidatus Bathyarchaeota → Candidatus Bathyarchaeota archaeon670Open in IMG/M
Ga0102962_1149091All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → unclassified Gammaproteobacteria → Gammaproteobacteria bacterium661Open in IMG/M
Ga0102962_1154643All Organisms → cellular organisms → Archaea649Open in IMG/M
Ga0102962_1154734Not Available649Open in IMG/M
Ga0102962_1156638All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium644Open in IMG/M
Ga0102962_1157291All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → unclassified Bacteroidetes → Bacteroidetes bacterium643Open in IMG/M
Ga0102962_1160804Not Available636Open in IMG/M
Ga0102962_1169600All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → unclassified Desulfobacterales → Desulfobacterales bacterium619Open in IMG/M
Ga0102962_1189499All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → unclassified Desulfobacterales → Desulfobacterales bacterium586Open in IMG/M
Ga0102962_1194161Not Available579Open in IMG/M
Ga0102962_1201868All Organisms → cellular organisms → Bacteria569Open in IMG/M
Ga0102962_1205596All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium564Open in IMG/M
Ga0102962_1209978All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacterales incertae sedis → Candidatus Desulfatibia → Candidatus Desulfatibia profunda558Open in IMG/M
Ga0102962_1227711All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfobacterales → Desulfobacteraceae → unclassified Desulfobacteraceae → Desulfobacteraceae bacterium538Open in IMG/M
Ga0102962_1237672Not Available527Open in IMG/M
Ga0102962_1252735All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria512Open in IMG/M
Ga0102962_1256645All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Xanthomonadales → unclassified Xanthomonadales → Xanthomonadales bacterium509Open in IMG/M
Ga0102962_1257106All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria508Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0102962_1022088Ga0102962_10220882F024682MVTLKAEDELISKLKSEIGKTLPAMFAGMAENMLENNKDVIIAWLKDNKDLVKEVIES*
Ga0102962_1022122Ga0102962_10221221F048676CGTASDAVDAVKLEIPQGFELLKFKMSEYLKNIVKLTISKI*
Ga0102962_1025213Ga0102962_10252132F081352MCLADVSLMIRLIRKISTITLACLLVLNLTAGAAVVVEHCPPLLGSSSPMDIDHCDGMLNFAFPMQGCCGECNDIFCDLIKNPLQDANAVNASPFQGSCYPFFLGTVDPIAESGTWVASSAPRYLFFAALAWSQIPLYIENLALII*
Ga0102962_1030729Ga0102962_10307291F087679VHGVGGASPRFDYYNYWMAMHSWMSAPINDDGTAYYGNSLVHRNDFTVDDGTWVCLEVHARLNPDPSSGAGAVLEVWKNDALVQRFDDEGPMGYWVRDKFCPADADGSECADYVAPATDTLDLQFRSTTDLRLDAFWPQNYITDDAMGTLMFDQMVVASRRIGCMR*
Ga0102962_1031979Ga0102962_10319791F084253IFVLIKAAQGFAVRRTSVRRSRKPAENADQDKNGHLWMGNS*
Ga0102962_1038996Ga0102962_10389963F048676DAVDAVKLEIPQGFKLLKFKMSEYLKNFVKVTILKI*
Ga0102962_1041063Ga0102962_10410631F054044MSNTVGILVLVFALTALILLFLDFSFRSAADQEECLQLVRALGLNSLSLVPSGRPLRNPGAIDPSIDLRFDPRLGRIHLDGADFVLKVSD*
Ga0102962_1045619Ga0102962_10456191F087950QCWINGPATGGIDDKIKMVNILLKTNIPSFHPSIIPFPEKIRRPKKSPYSQ*
Ga0102962_1047778Ga0102962_10477784F084253VLIKAAQGFAVRRTSVRRSRKPAENADQDKNGHLWMGTS*
Ga0102962_1060092Ga0102962_10600921F037736RNSSVPYRVQLDGLQILWLLANPLWTHGIGESRSKTITGWLLMGAADANHIWWLNTNPFTGLLLHLNSYRILHLPCGFLNMLCFLLLCHRQRNDNY*
Ga0102962_1066581Ga0102962_10665812F024001MNKFTILGVEAPVWPCAKPQEYLDIPSFRNAVRRDASAFK
Ga0102962_1071782Ga0102962_10717821F098287TREFIDYNPPSRKHISLATRYSEDVAVVTNLLKKYEPEIVITHTLGGEKLDHEGTAYMVYLAFMRAIRDEVPVGKLWMTVNGWLLDREARESGRGKPDVTIDISDYLAVKYGALDQHLSQNGGFGRDYIVINKGKVNENIEEFITVADNTK*
Ga0102962_1077564Ga0102962_10775641F004928MAHALRSIESEPANTVEIVVHISETLGDERRKDLVTALENEESIVSAEFCPLRYHLMLVRYDRDISSSQDVLGSVKAQNYNARLIGPV*
Ga0102962_1078535Ga0102962_10785352F042460GYFGLAHGGPTFTIYLLLVNLPYGIITALAARLIMGSKP*
Ga0102962_1078707Ga0102962_10787072F084254PMVIEILAEVIRQSKRHPRADQVASALAIRGLPIAQNDVMTVFDHYDIEKKTPDSH*
Ga0102962_1083829Ga0102962_10838292F075754VDDTSEWYAAQVARSEYLRDSEEDADMHHRKGGVVAEGLVKAIFAGMEWWDTHSFDTFLGGTRYDIISRGLNRGEPRQHYVHKIQAKKEERAKPSTHYYAVVRNHPDYWLIGHINSIRFWYLCDRSAPDFWDDEHFDGGFLSYEHFEQLPLAQ
Ga0102962_1086947Ga0102962_10869473F037736VPYRVQLDGLQILWLLANPLWTHGIGESGSKTFTGWLLMGAAATNRIWWLDTNPFTGLLLHPKSYRIMHLPFVHSNVCLF*
Ga0102962_1087516Ga0102962_10875162F007072MELRKISSNKKGQLSIGDAPTVVLLVGLVFLVMATIAFIGEKYQGSLTADSTAYNVTGDLQTEIGNNTSIAGIILTISLVGIVLTILIGVFIGVRGGTSRV*
Ga0102962_1087734Ga0102962_10877342F099324MFKQIIFVIMLGWVLVLSGCAAIDKGHDIEGEDYRGGYPPRGGYTRTSQHKALVSEACNIEANNLAGDKDFMADDRARRVYFSQCMQRNGYNAAGNYVGIPPK*
Ga0102962_1094579Ga0102962_10945793F087210MRFLIGALTFAGAETALAHTPESGFLSNFGHQLTSLHHSPAAMLLGVVVLVLMLVAVRKLTTR*
Ga0102962_1101939Ga0102962_11019392F057781MKLPDLQMLAHWLDPALVAALETRRRKKNEWHRRRKLATLQTLWLMLAVSLNTQ
Ga0102962_1114166Ga0102962_11141662F024682MVTLKAEDELVSKLKAEIGKTLPAMFAGMAENMLENNKDVIIAWLKDNKDLVKEVIES*
Ga0102962_1114983Ga0102962_11149831F059980SLHLMEEAGSMGFSGGFEQGNPETALPELIRFIPGNVKRVNSQNRFCCG*
Ga0102962_1130294Ga0102962_11302942F054047FVGWVKHPYIFCWVSFLYPTYTPAIFVLSAKPDKMAEDRIIPKIIKM*
Ga0102962_1145068Ga0102962_11450682F024682LDPEDELISKLKAEIGKSLPAMFAGMAENMLENNKDVIITWLKDNKDLVKQVIET*
Ga0102962_1149091Ga0102962_11490912F095489MGTNAATPMSKTRMNMPASNDVVDWNLVAERRFEDIEELNDLVQGWDFEFHQLKAGRSPAELLQLGRPEFMLTRF
Ga0102962_1154643Ga0102962_11546431F025653MSDPMKYFESKLKNMCLAELQDYRKRLDESIKQKIEQTAPNEQIAPLILYRGRVEHEMTKRMNKMKSQ*
Ga0102962_1154734Ga0102962_11547343F032166EEYLEGNSDKAQRGNEPLDDVITLLETPPEQWRDVEDGFNEIAEAREMLDFQRRTQAQIKSQGLGSNTLPEYDDMTFREAASIRWGIDPDDEREWL*
Ga0102962_1156638Ga0102962_11566381F037736YRVQFDGLQILWLLANPLWTHGIGESGSKTITGWLLMDAAAANHIWWLNTNPFTGLLLHINSYRIRHLPFGFLTASEFQSRSTCLIKK*
Ga0102962_1157291Ga0102962_11572912F059981MEREKIICIFCGRIARIKEQDDLKIVVCPKCKRETEMDEYQDKFDQWMGDIRNNDGKR*
Ga0102962_1160804Ga0102962_11608041F031307MSKIRTYFGFKNGKLVSVLHSVNADVKKAVDCTYYITEPQEVEKQIAKWKQDNSE*
Ga0102962_1169600Ga0102962_11696002F044508VAIKTNRSDKTEIKKILKISDHQQRWPRPLPGAILIPPAMLVVADLLN
Ga0102962_1189499Ga0102962_11894992F045765MKNYSSKSGDTTAINIDDRLYDLLRKFCDKEGRRLKDFVEDALENAIYTEESIKVLNEEIISLKKKEAKYDYAFRRGFQKGFYISFCALHGQILLEPDDEAFEILKNDPFRISKGAQLDLFRSKEI*
Ga0102962_1194161Ga0102962_11941611F053305LSRRSVSKKTKLIRNPKELKMLKKSVSMALVALFVFSFIAVATVSADETQKITGTVMSINVETGEVIVKDDAGEMKKLMADPKAEGGVDLKMLKVGDPVSVESDSNGVI
Ga0102962_1201868Ga0102962_12018682F059980MEEACSMGFSGGFEQGKPETALPELIRFIPGNVKR
Ga0102962_1205596Ga0102962_12055961F048318ILVMATVENVSLAITASATKPGYSDIAYSYELHPSELDCAWKREYTISTVLCGEDVIEDDVLAWGKDEHKVKFDASGPCESIKVGRIFEVETKVLDEDVFGDDEVYLIVEARSALGPDAAGENLVMGKSNIVIGNF*
Ga0102962_1209978Ga0102962_12099781F101186MLFENQRKIFADFHKSVEAEGVLDEKTSHLIKVAAAMSLGCYP*
Ga0102962_1227711Ga0102962_12277112F085724MNRRWKMKTILAIVMVLGMTAVYEPDSIIPKYFIDKTPQGEYRVYDSKQIVVPKYIVKPDPWGNGYRVYETGKPVL
Ga0102962_1228326Ga0102962_12283261F090406KGGNVYALAPTVVDQILKDAMSTEISTGTLRRGSTPYPSYLGEVTWGSLDKDTITASARPAKGRKLDGTIVDGYVFEVSRKGTAPATGEPTVKRIFAKLQKDAELTGTGAAFVEFAD*
Ga0102962_1237672Ga0102962_12376721F008223SKKPAPPSPVEEASRILERFATATSMGVDREDLSRYPAKQRQVMALHFGAIEFLAREFQLDETQMLGVFVVFLDNYFIMPITESGSISERVQGFYDKPQEREYLEAGADVCRRWHELNERRAPLQLGQMLQAS*
Ga0102962_1252735Ga0102962_12527351F044506MMQCWINGPATGAIDDKIKMVDILLKTNIPSFHPSIIPFPGQIRKSQKTSIFSVGCRNYETLNYTWV
Ga0102962_1256645Ga0102962_12566452F048318TVENVRLDITASTTNPGYSKIAYSYELNPSEMDCAWKREYTVSADFWGQDLIDDDVLAAGLDEHKVKFDDSGPCEPIKVERVFEIETKVLDEDLFGDDEVYLIVEACSGFGPDAAGEDPVTGRSNTVIGDF*
Ga0102962_1257106Ga0102962_12571062F041201LVQDRGGAEFKTGGILLYVEDFKRGTNKDIGPKDIFEMGSKKPSGSSATY*
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