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 3300009031

3300009031: Microbial communities from groundwater in Rifle, Colorado, USA - 3D_0.1um



Overview

Basic Information
IMG/M Taxon OID3300009031 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0117958 | Gp0126271 | Ga0103682
Sample NameMicrobial communities from groundwater in Rifle, Colorado, USA - 3D_0.1um
Sequencing StatusPermanent Draft
Sequencing CenterLawrence Berkeley National Laboratory
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size1593196098
Sequencing Scaffolds31
Novel Protein Genes33
Associated Families32

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria8
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Methylococcales → Methylococcaceae1
All Organisms → cellular organisms → Bacteria → Proteobacteria2
All Organisms → cellular organisms → Archaea2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales1
Not Available6
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → Desulfobacca → Desulfobacca acetoxidans3
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Anaerolineae → unclassified Anaerolineae → Anaerolineae bacterium1
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae1
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameMicrobial Communities From Groundwater In Rifle, Colorado, Usa
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Freshwater → Drinking Water → Chlorinated → Groundwater → Microbial Communities From Groundwater In Rifle, Colorado, Usa

Alternative Ecosystem Assignments
Environment Ontology (ENVO)Unclassified
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Subsurface (non-saline)

Location Information
LocationRifle, CO, USA
CoordinatesLat. (o)39.32Long. (o)-107.46Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002386Metagenome / Metatranscriptome565Y
F002400Metagenome / Metatranscriptome563Y
F008498Metagenome / Metatranscriptome332Y
F010209Metagenome / Metatranscriptome307Y
F014308Metagenome / Metatranscriptome264Y
F021446Metagenome / Metatranscriptome219Y
F023933Metagenome / Metatranscriptome208Y
F028576Metagenome / Metatranscriptome191Y
F030143Metagenome / Metatranscriptome186Y
F041503Metagenome / Metatranscriptome160Y
F043475Metagenome / Metatranscriptome156Y
F045635Metagenome / Metatranscriptome152Y
F053932Metagenome / Metatranscriptome140Y
F056038Metagenome / Metatranscriptome138Y
F056321Metagenome / Metatranscriptome137N
F056343Metagenome / Metatranscriptome137N
F056711Metagenome / Metatranscriptome137Y
F061534Metagenome / Metatranscriptome131N
F065251Metagenome / Metatranscriptome128Y
F069659Metagenome / Metatranscriptome123Y
F072385Metagenome / Metatranscriptome121Y
F073875Metagenome / Metatranscriptome120Y
F076223Metagenome / Metatranscriptome118Y
F078672Metagenome / Metatranscriptome116Y
F080249Metagenome / Metatranscriptome115Y
F082080Metagenome / Metatranscriptome113N
F091594Metagenome / Metatranscriptome107Y
F094578Metagenome / Metatranscriptome106Y
F097603Metagenome / Metatranscriptome104Y
F097858Metagenome / Metatranscriptome104Y
F098715Metagenome / Metatranscriptome103N
F100051Metagenome / Metatranscriptome103Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0103682_10018444All Organisms → cellular organisms → Bacteria4324Open in IMG/M
Ga0103682_10018657All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Methylococcales → Methylococcaceae4290Open in IMG/M
Ga0103682_10022013All Organisms → cellular organisms → Bacteria → Proteobacteria3869Open in IMG/M
Ga0103682_10030385All Organisms → cellular organisms → Archaea3184Open in IMG/M
Ga0103682_10035067All Organisms → cellular organisms → Archaea2916Open in IMG/M
Ga0103682_10044193All Organisms → cellular organisms → Bacteria2530Open in IMG/M
Ga0103682_10060404All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales2092Open in IMG/M
Ga0103682_10069666Not Available1920Open in IMG/M
Ga0103682_10089801All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → Desulfobacca → Desulfobacca acetoxidans1649Open in IMG/M
Ga0103682_10097220All Organisms → cellular organisms → Bacteria1575Open in IMG/M
Ga0103682_10132267All Organisms → cellular organisms → Bacteria1318Open in IMG/M
Ga0103682_10239965All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria941Open in IMG/M
Ga0103682_10250556All Organisms → cellular organisms → Bacteria → Proteobacteria918Open in IMG/M
Ga0103682_10256900All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → Desulfobacca → Desulfobacca acetoxidans906Open in IMG/M
Ga0103682_10287281All Organisms → cellular organisms → Bacteria852Open in IMG/M
Ga0103682_10290844All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria846Open in IMG/M
Ga0103682_10346481All Organisms → cellular organisms → Bacteria768Open in IMG/M
Ga0103682_10399505All Organisms → cellular organisms → Bacteria711Open in IMG/M
Ga0103682_10441387All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium673Open in IMG/M
Ga0103682_10458861All Organisms → cellular organisms → Bacteria659Open in IMG/M
Ga0103682_10470243All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Anaerolineae → unclassified Anaerolineae → Anaerolineae bacterium650Open in IMG/M
Ga0103682_10473715All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla648Open in IMG/M
Ga0103682_10477731All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Syntrophobacterales → Syntrophaceae → Desulfobacca → Desulfobacca acetoxidans645Open in IMG/M
Ga0103682_10486964Not Available638Open in IMG/M
Ga0103682_10523711Not Available613Open in IMG/M
Ga0103682_10530804All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae609Open in IMG/M
Ga0103682_10586480Not Available576Open in IMG/M
Ga0103682_10635055Not Available552Open in IMG/M
Ga0103682_10657453All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → unclassified Deltaproteobacteria → Deltaproteobacteria bacterium541Open in IMG/M
Ga0103682_10683208All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria530Open in IMG/M
Ga0103682_10723304Not Available514Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0103682_10018444Ga0103682_100184441F080249MADNKNKIQEDKNLISFKQKYEVDYAIKQLKKQFPNETKIDVKEALFDAAKQVKPSEGREKIMRIARKELRD*
Ga0103682_10018657Ga0103682_100186577F091594MSNNGITHYCLGNGELKCDGCQQQKNWKTLNQMPDALRKPLQTQAQRIDDTDCILAGRPWRVEA*
Ga0103682_10022013Ga0103682_100220131F041503MKRAGLAALLALGAMGPVPAPAGEAATSLRAYYLFLAGAPQGCEDCYVPLIIARQPLEDVATSGRDTTIVLITTYERDSIWKVERGVSLAAADVSPAERIVRLRGRRYRYQEIAPAEVLRLLEKPEGTVPIHRM
Ga0103682_10030385Ga0103682_100303855F094578MINEKERPKWPMKRLKGMYFAMHCWKCKKFELPMEEYQKLCENNIQKIIDNLEIKEMKFKDFNNIIKNSEFCKFEKRDFSNDCPICKKFGIPSKPF*
Ga0103682_10035067Ga0103682_100350675F065251MYLRSFIKGGKKYYYVARAVRTGKRVIQKYVLYIGTADTIYEKLKNLKKK*
Ga0103682_10044193Ga0103682_100441931F023933MSKQASFSSRQNLLSIRVPKELGGKKVVLVEAEEYAKMKRRLAEIEDTLEKVARGEAAYRQGRTKTVKSLSELGRCHMEG*
Ga0103682_10060404Ga0103682_100604044F100051MICAVFGHRYIVERVLNHGSRKVGCTRCGKHWAMHDGTRSFVSWDGEFEEFYAPYGILAKASGDVPPI*
Ga0103682_10069666Ga0103682_100696662F065251MYLRFFKKGRKKYYYIAKAVRKGVRVIQKSILYVGTADTLYEKLVKLKKRA*
Ga0103682_10089801Ga0103682_100898012F098715MADSIKVQAMQKLAGVFGAVASIGSVHRWQGSPTDLDRVKLPALFFWDEDETRDKRNRLAMGTLKLYVAIFFRLSPSGAASFPDVADNLQGAIHNALLGTSELKGLVENLQEERVWKEFPNDQYGVLFMSFTLTYAHAWGDAFSTTY*
Ga0103682_10097220Ga0103682_100972202F008498MSSVTYKHQPAIDATNGSVPLAGTSHLYTVTKVLWSDSIQEFLETLFLGTTLHVCCGMSKIGDYRLDFDPNNNPDFICDAARLSFADDSFDTILCDPPYNGKFQWNHDMLSELSRVASKRIIFQHWFIPANKFGLYKKAQEKFELTQPYVWQGQTYFGRAQIISVFDVRNSYLTKE*
Ga0103682_10132267Ga0103682_101322673F014308MSVSSIGVQVIMPKTGTSLDSAPQQQANEREAANAPAAKEAPPPPGMGKFVDKTV*
Ga0103682_10239965Ga0103682_102399651F056321EPDMPHVETPAPPPIIYVRVEFYRGVKAIAKFLGVHERTAQAFLHDGKIPAKKDGTGTWVLTNLDYFTSLQR*
Ga0103682_10250556Ga0103682_102505561F043475MADVEAARRALHDTLGPSEVLSDPLALALYARDASMV
Ga0103682_10256900Ga0103682_102569001F030143LASQGHDLYRLIDGYPALMVKGLLAAAQVRSRHRLMEQGVALTMAVTGALDLAFNQGKGKVLERWLKEMSGEEKSEPPEERPKMSDRAFSFFASMPRQGPD
Ga0103682_10256900Ga0103682_102569002F056343MPEPITDSQVLSSYLAEEQISGFTVKPWTIKQLLLVMPILDALVQEFKTQGVTLDNLGEMFESQGLAAAKDIIQTILPRLPEFLAITLKIDREQAEELDLGLGMQLAVKVLRMNIDHLKNAFGLIMSQMGVLIGPEATP*
Ga0103682_10287281Ga0103682_102872811F056711MRKAFTALAAAAFALSIVAGGCAKDKSPSQLQAGKKGIAGTEKKAAPKPRAKLFTGTIEDLDEAAGTRSLKGPKGEMSFQARKKVKEQLGELEIGDKVIVKHDGKTALSIVKPRTSKTALAWHRNEETETVREEFH*
Ga0103682_10290844Ga0103682_102908442F053932MNRWLPHVLFPRPGWFILHAAAIVLVFLLGYSVRF*
Ga0103682_10346481Ga0103682_103464812F097858MSTRQTICAIERTAKQVGAAATLILGTLLLLIRP*
Ga0103682_10399505Ga0103682_103995051F045635VADFVLTQGFLEELAAFEKSASSQDLKNLENNLAAIVANPALPGRVPSFYDPSLPSYLYRSSNLLIHYRVRRRRLVEFLNLFWPKI*
Ga0103682_10441387Ga0103682_104413872F072385REKDTRILQETYEFWLKVFPKIPYPGPEDATVFLEFMQVKAQHDPKEFVDGTLIQELEREGFVDSVYRER*
Ga0103682_10458861Ga0103682_104588611F056038MRQRGGPAETHYEFVTRYLDSIPRVDPAAVDTVLEMVGQKGAPKAQLFDNSIVDRLVQEGLIDRLYKRAKP*
Ga0103682_10470243Ga0103682_104702431F061534MNDYGHIPPELMKRVRGMFLTLFGGKEKLDYWLTRIADELADTNNPANRPIRLDPSLIPEEFQSVMHRPKEVVDLIVERLDSLSVFGYTAKVIEQGEASLAIVSDQASGHVIEETAGPDPDNLIHSLVEKYGHNLEVVKE*
Ga0103682_10473715Ga0103682_104737152F021446AQSAAEDIYNDPSPGGKYVYRGCNLAQVIFIRGDKLSEINELTLIIEVQAGQNSHTTRLTFPILAKRQEGNKLILDYQWPPAGDTYEATIIGGSLINRKTKGYLAGIREELFTRE*
Ga0103682_10477731Ga0103682_104777312F076223MAPVPIEAASQVTEIMLSDQADAKGVVAQHQSKFSTAVGEIFGTALIAGAKKGQAVTTELFYVTRDLSILSSTDDLPNDGEVTLTFAFPKPDKGWPPGDYKLVISLAGGAGKTVTFQVK*
Ga0103682_10486964Ga0103682_104869641F002400MPIKKKSSRPAACAHCAGTDLVRRIATYPVHLTGPLEGKQIHVGRVALYECQSCGSLMPTPAGRAKVERNLAMGIRLFLGQFP*
Ga0103682_10523711Ga0103682_105237112F069659MKILKNNKDVGALQGFVLSIVAVAVVLAVGLIVLSSLSDAARVGGVSTGATTVASNATDAVIEKLDDVPTWIGIIIVVALAFIVLSYFYSQR*
Ga0103682_10530804Ga0103682_105308041F028576DRAGNAQVNVAVQTNVSFDIGRIADRLIKYFDREPDLKARIAQALVEIDDEQAA*
Ga0103682_10586480Ga0103682_105864802F002386MTFVFIPKGEYHIGQTVEVRGKKMVVESYSHTGKNVVVCTLPGATKFERIVCVCTDEEAIKGE*
Ga0103682_10635055Ga0103682_106350551F082080LHSKIMCETPRLMTDKEAARLYRLEDIGVCLWGYWGVERPGQPKLASKLAKEALQFSTGSSSRELQTSLLHRDIGKGRILLSLPSLKVVSPDLAEVTEKNEGPVLVAVEGDDYETWTYGIWLYRLVRRIYPARGKGGKPGQVSWKIVAAWLQEEPALLDQFVDLLVDRKLRTWDQEQKGVAIQ
Ga0103682_10657453Ga0103682_106574531F010209MKLRKQIIVLFLALMLVPVFALAQEKKGTVSGYDKESRMLTIKGKDWEQKAKVSSGVAKEKADLLKEGSKVTVEFDDRGGGDVRVKALSPR*
Ga0103682_10665648Ga0103682_106656481F097603MWIVNPLANIKKEQLVTRPFGIVWSSDPNGVREVQFSDIKESSYREEEMLKSDMRYASGVDDFSMGVAGDVGSATAVRHLRESTLERVRLFINHLGSSYSKLMRYWIVMYDQFLSGPMKIRITDADGTEKFGLIEKGDLRGEFDFKATVLPSIAGKSDIDKKTGMDLFQLLINLPFTDP
Ga0103682_10683208Ga0103682_106832082F078672MIRGAETRSPTVSDEKPHHQPFPEDEEGAPHPQPSSYTMVDPRFREIYLQFYKETYKPS
Ga0103682_10723304Ga0103682_107233042F073875MSTSETMIAEKIRRKPFVTLLGTCQDCGQPVIAGQEFLRLENGIEHALCFYEPAYAKRMRDLKPKTGP*
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