NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Sample 3300002664

3300002664: Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaT HF137 (Metagenome Metatranscriptome, Counting Only)



Overview

Basic Information
IMG/M Taxon OID3300002664 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)
Gs0085736 | Gp0056704 | Ga0005488
Sample NameForest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaT HF137 (Metagenome Metatranscriptome, Counting Only)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size6962699
Sequencing Scaffolds30
Novel Protein Genes32
Associated Families31

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available20
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. Tv2a-21
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Saprospiria → Saprospirales → Haliscomenobacteraceae → Haliscomenobacter → Haliscomenobacter hydrossis1
All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Pelagophyceae → Pelagomonadales → Aureococcus → Aureococcus anophagefferens1
All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → asterids → lamiids → Solanales → Solanaceae → Solanoideae → Solaneae → Solanum → Solanum tuberosum1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales → Synechococcaceae → Synechococcus → unclassified Synechococcus → Synechococcus sp. CC96051
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1
All Organisms → cellular organisms → Bacteria2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micromonosporales → Micromonosporaceae → Micromonospora → unclassified Micromonospora → Micromonospora sp. L51
All Organisms → cellular organisms → Bacteria → Acidobacteria1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameForest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Loam → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies

Alternative Ecosystem Assignments
Environment Ontology (ENVO)forest biomelandforest soil
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Soil (non-saline)

Location Information
LocationHarvard Forest LTER, Petersham, MA, USA
CoordinatesLat. (o)42.53312Long. (o)-72.189707Alt. (m)N/ADepth (m)0 to .1
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000396Metagenome / Metatranscriptome1185Y
F001765Metagenome / Metatranscriptome639Y
F002272Metagenome / Metatranscriptome576Y
F003199Metagenome / Metatranscriptome501Y
F003383Metagenome / Metatranscriptome490Y
F003787Metagenome / Metatranscriptome468Y
F004142Metagenome / Metatranscriptome451Y
F004183Metagenome / Metatranscriptome449Y
F006591Metagenome / Metatranscriptome369Y
F009043Metagenome / Metatranscriptome324Y
F018340Metagenome / Metatranscriptome235Y
F018933Metagenome / Metatranscriptome232N
F020912Metagenome / Metatranscriptome221Y
F021919Metagenome / Metatranscriptome216Y
F022827Metagenome / Metatranscriptome212Y
F024561Metagenome / Metatranscriptome205Y
F030305Metagenome / Metatranscriptome185N
F036049Metagenome / Metatranscriptome170Y
F038098Metagenome / Metatranscriptome166Y
F056822Metagenome / Metatranscriptome137Y
F057922Metagenome / Metatranscriptome135N
F066510Metagenome / Metatranscriptome126Y
F067292Metagenome / Metatranscriptome125N
F068528Metagenome / Metatranscriptome124Y
F070743Metagenome / Metatranscriptome122N
F071907Metagenome / Metatranscriptome121Y
F072370Metagenome / Metatranscriptome121Y
F076112Metagenome / Metatranscriptome118Y
F089618Metagenome / Metatranscriptome108N
F093040Metagenome / Metatranscriptome106N
F103604Metagenome / Metatranscriptome101N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0005488J37274_100002Not Available578Open in IMG/M
Ga0005488J37274_100027Not Available602Open in IMG/M
Ga0005488J37274_100064Not Available579Open in IMG/M
Ga0005488J37274_100119All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. Tv2a-2727Open in IMG/M
Ga0005488J37274_100133Not Available818Open in IMG/M
Ga0005488J37274_100147Not Available608Open in IMG/M
Ga0005488J37274_100194Not Available581Open in IMG/M
Ga0005488J37274_100220Not Available747Open in IMG/M
Ga0005488J37274_100385Not Available597Open in IMG/M
Ga0005488J37274_100432Not Available779Open in IMG/M
Ga0005488J37274_100544All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Saprospiria → Saprospirales → Haliscomenobacteraceae → Haliscomenobacter → Haliscomenobacter hydrossis546Open in IMG/M
Ga0005488J37274_100661Not Available647Open in IMG/M
Ga0005488J37274_100674Not Available581Open in IMG/M
Ga0005488J37274_101154Not Available695Open in IMG/M
Ga0005488J37274_101162All Organisms → cellular organisms → Eukaryota → Sar → Stramenopiles → Ochrophyta → Pelagophyceae → Pelagomonadales → Aureococcus → Aureococcus anophagefferens628Open in IMG/M
Ga0005488J37274_101189All Organisms → cellular organisms → Eukaryota → Viridiplantae → Streptophyta → Streptophytina → Embryophyta → Tracheophyta → Euphyllophyta → Spermatophyta → Magnoliopsida → Mesangiospermae → eudicotyledons → Gunneridae → Pentapetalae → asterids → lamiids → Solanales → Solanaceae → Solanoideae → Solaneae → Solanum → Solanum tuberosum549Open in IMG/M
Ga0005488J37274_101248All Organisms → cellular organisms → Bacteria → Terrabacteria group → Cyanobacteria/Melainabacteria group → Cyanobacteria → Synechococcales → Synechococcaceae → Synechococcus → unclassified Synechococcus → Synechococcus sp. CC9605593Open in IMG/M
Ga0005488J37274_101348All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria750Open in IMG/M
Ga0005488J37274_101791Not Available618Open in IMG/M
Ga0005488J37274_102061Not Available792Open in IMG/M
Ga0005488J37274_102154Not Available605Open in IMG/M
Ga0005488J37274_102343Not Available572Open in IMG/M
Ga0005488J37274_103757Not Available818Open in IMG/M
Ga0005488J37274_103902Not Available764Open in IMG/M
Ga0005488J37274_104312All Organisms → cellular organisms → Bacteria509Open in IMG/M
Ga0005488J37274_104879All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micromonosporales → Micromonosporaceae → Micromonospora → unclassified Micromonospora → Micromonospora sp. L5638Open in IMG/M
Ga0005488J37274_108003Not Available597Open in IMG/M
Ga0005488J37274_108260All Organisms → cellular organisms → Bacteria693Open in IMG/M
Ga0005488J37274_112072Not Available539Open in IMG/M
Ga0005488J37274_112670All Organisms → cellular organisms → Bacteria → Acidobacteria508Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0005488J37274_100002Ga0005488J37274_1000021F057922PANSPFSDWHAQSEHSTQGSGDVVLLLPVAAFIRPRISAPEPICLFYLLEARVSKQTFARPHRLLPFESHRSEVNAPALSLRRNSELFFQSVRP*TPILACALTPSGYVRCPKPVTVFQAQSSQTSIQLPLPFRTFILPDRSAQSVARSEKLAFVSGPFSLRSPQASIIV*
Ga0005488J37274_100027Ga0005488J37274_1000271F072370GSK*PVSQLVLQPACTARTWHPEYGVTLGPLLPTAGFIQQRIKAQVRVRCPVPVETRFSIRPFALRQR*LTLRQISADGSTFPACIFETIPKFPLARSAPNSRPRLAFYGRPRCDLCSKPVAKVRFRNSAPVLRLPLPVGISQSLRLVAPSLIPNVEACLCESPDFPSLPAALG*
Ga0005488J37274_100064Ga0005488J37274_1000641F021919FQVTRSRSQTPRRHATAQSFASRIAGRHPFGSPPPSFKRNGSIPRGSPASFPSWNRHLEAAFHSPETTARFQATISRSKLPTCSFDALPFVRPARSDFDSPTHSGSPRCARDRYLNPVA*LPSGISNPSSDLHSPSGPFGPLRIKAFNPIPGRKVHLPSTPDSPSLPGIVSILLVPMPDHRFEVAKRSEACCS
Ga0005488J37274_100119Ga0005488J37274_1001191F089618PWRLNLDGLVVQPVLRPSATPAANLQLSLPLPPLAAPVSNIRLASAALPPARPRANPPARIGVFSPGSTGGKHPACTVCYALPIDWLLTFQLALASGLQLGLRLLPTHIWCRPSARQVLRLPVLTGFRRNLRLAPAAAAAPTRAGGCPLLPHRPRTSDSHRLLFCRLCRSRLTQLALRALTSGWAFDAPLASTEPCIAG*
Ga0005488J37274_100133Ga0005488J37274_1001331F030305GVFRMPLQFIGSCIVPFGFLVPVPSFLFPALSDLARRCSSGRPVPRVSDRTGDEAPSCPGSSVFSAVPADGSSSRPDSRILQLGSPQIARLPRLSTSCLAVDERPGCPVRSIIWLYRRRRFRVAPNLTSFGGTVSNSPSRPGSSLLQPLPLMVLRVAPGAPSSGFAGGDSSGCPEALIPRLCRLVAFRVSPDLPPSDICRFRFSGLPQIGFLGGSMMNPRFARTLHPRSIQLTSLQVAPKFPLPAAPRMNLQTHSGLAFLPTLRCSLNLYPL
Ga0005488J37274_100147Ga0005488J37274_1001471F004183MERLRGANEDRAIPEGGPNGCEAYQRVDPEGAKTPEGERRQAAQPAKQAGKECNGLEAWMQPEAGANQQLAAESKSRTSRKTGRQVSEVAGQEL*
Ga0005488J37274_100194Ga0005488J37274_1001941F076112VAIPPEPGLTGESEGAVNRTGLAKVRQRIEAAGWELRSRNGGLETGSRFGGAKGRCEMPVPAGAHAGDLQGVNPLSPKGMAGS*
Ga0005488J37274_100220Ga0005488J37274_1002202F018933DSLYRPRIAPRSVLIDRCCPPIARRSTLNARRRSQIAPRSTLCARAGHGLLHVQHLESSPRVQIAPYSTLCVPRRSQIAPRSTLPALYRSRIAPLSAIDAPCRSTDISVRLHFAPCAVHGLLRAQHFKLRTAHRLLCVRRLHFVPIADCSAFLTPCLVSLADCSVLNT*
Ga0005488J37274_100385Ga0005488J37274_1003851F066510MGSGALIRGRVKVAAGSKRTASQLHCMLSSDCACQSENGLLDGSLGT
Ga0005488J37274_100432Ga0005488J37274_1004321F003383PQSSRSARVASLGCPVPAPFLLSRRPNPQVAPWFRAFGRAGDGRSSCPERRMPLTLPVSASFRVAPENLAFSCSARDVGPGSPLVLHLRLYRRSIIESPRCSHHSAVPTGRSSGFPKSRPFGIADDSLSELPRTLNPPAPTDGYPSYLGSRTIRFALVESPGRPGHSPLATAIDQFPGCPKSWVSHRSPILRRFESPRILVPRLTRVCFLGSPRFGICG*
Ga0005488J37274_100544Ga0005488J37274_1005441F003787ESAGRLASLLPDNRFPRSPDQCFKTRRSLLSRSGPDARDGLSLARNGCSFRSLHSKVNVPGLPLRFQLAASSARSAFRLRYPVRLAPVWAASLLLARCSLHDLLEDRASSLHSPLGLLPPSGSKRSAGFAVFRPAFRLRPISLRSPPPVSICQVLSLVPITSVSAADHRSRSATSSEACC
Ga0005488J37274_100661Ga0005488J37274_1006612F020912MVATVHRHGTDDSGGQGNEAGPKKDAERRDKVSIRTGKETRPRQGM*
Ga0005488J37274_100674Ga0005488J37274_1006741F000396DLISQPNSPPACNGTELCPQDRRVSSLQLPAAFFRTLRINAYGLTCQLSWLEPVSRSGLSLSRNDCPSPGHHFEVEAPDLLLQHPAVRSSCPFRFRFPYVLQFALVRARSIPKPRCLTPVRHSQPFFGSPLPFGAFRALKDQSVQPDSRLGSSPSERSRLPITPRHRIHFLVGLDTGSPLQAR*
Ga0005488J37274_101154Ga0005488J37274_1011541F067292ESVVQPLLRPSAPAAGPQLSLATASTGCAGFKPPTCVGCSTSGSTGGQPSGSDRCSVLRLDRWQAPGFRRLHCASARPVANLPTCVGVLPPARPATNCRLTPGADSSARLVPNFRLSPVVVAAFSLRLLLLRLLQLALAVARLPYRWRTSDSHRL*
Ga0005488J37274_101162Ga0005488J37274_1011621F038098GIQDQGCHPRYLQRLRRSLSTSPFPARSSPARTSQPAFRPAARCPEGCSLVPRRALRPHPGVEVSLAFSLDPEPHGFRFGIRAIPAVLARVVSFKLRVLPRGFYPADSNQLALLTRPIRLAYRYAWRVATSSSTYPARVVRLPSLRTSDCARTVLRYLPQVHCRLTFICAGLRQVPLDFPSEPSPCGFDPAVRNPLPSPRASSYFQDL
Ga0005488J37274_101189Ga0005488J37274_1011891F009043VPSDLISQPNPPPACTALSFATRVARCCPFRSPPPSFESNGSTRPGSPAGFPAWSRYLEAAFHSPKTTVRLRTAISRSKFPTYSFDTLPNVHPARSVSDSPTRSGSPRHAQDRYQKPVARLPSGSPNRSSDLHSPLGPFGPFRIKAFNPIPGHEAHLPNSFDCLSLPGPGSILLAPMPDHRSR
Ga0005488J37274_101248Ga0005488J37274_1012481F070743MRGQSLACSVAEALPSCSPRRLLARHGSVRQSSLALLPARSHRLGTAFRSPATTVLFREPPWRGQRSRPIPSALILNLSSSPFGLGLPPSATFFTPPGVFHAQNPLPSFKPKTLKRPSNFRSPSGLSSFRIEALGQRLSLRSLPFMRGPIFLRSPKALITFDNYALSDHRSRFATVHQAFCSLN
Ga0005488J37274_101348Ga0005488J37274_1013483F018340MFVRLKLEESRDGLVATISERDADGKIAGPPMILLVRTKE
Ga0005488J37274_101791Ga0005488J37274_1017911F024561VALGQRIAKSGGRPRANGADAEPQSQTCLHLVRKLASANASPSELRGLTRRFSRRKALDGPAMRPKIPLAV
Ga0005488J37274_102061Ga0005488J37274_1020611F022827VPSDLSGRRVASASALVFRTSVPGLSPGRRPEFPRLHFPSPGHPCGRPDPVFSTGVQDQGCHPRYLQRFRRSLSTSPFPARSSPARTSPPAFRPAARCPEGCSLVPRRALRPHPGVEVSLAFSLDPAPHGFRFGIRAIPAVPTRDTRFYPSELESACASYPAYSPCASIRLARRHFLLELAPYWSPNLPPLRASGSPSSLAGFRLRSYGPTVFPPSLLPAHFYMCRSSAGSSRFSFRTVALRLRSGCSEPTAFAESFFPLSGS
Ga0005488J37274_102154Ga0005488J37274_1021541F036049MVALGTPLLVTVLLGGPLMGPPYTVRSSCAVETDAACPSGPGNPTDFIVRNFTDVGLAGLEIPASQLLLPTDPATEISIHHGWIPWTETTWLLLDSDARSVNQATCAGEVAKLHLSSAITDLDWLKVQLWQIPSLQPQRCAIAPTVCLTDC*
Ga0005488J37274_102343Ga0005488J37274_1023431F036049MVALGTPLLATFLLGVPLTGAPYSVRIACTVETDVACPALGPGDSTDFIVRNFTDVGLATLEIPADQLLPPTDSAYEMAVHHVWIPWLETHWRLQDSQARSTHETCAGEVAQLNLSPALTALDWLRVRLWQVPSLQPQRCAIAPTVCLTDC*
Ga0005488J37274_103757Ga0005488J37274_1037571F093040MRLAVAEGVKHALGVHHPKTGTDRKGPGLPINPDLSPVTRDYPRRSRVDGQSPREASATLNLPF
Ga0005488J37274_103757Ga0005488J37274_1037573F006591SLGAPPSQVGGRLLDASSRGNAEFSVSWQDRRPDCSKRLLGEAFQHDSQIPCRGTAPYKVMRPLRHGLVTAVLEVGPRELPPERWPKGTGLASYPSIDI*
Ga0005488J37274_103902Ga0005488J37274_1039021F068528MRTTDFCFSLPDYEYPCFVSYRHLFEAYASPLADGLASMTRRPVDLAFHDAESASVGFFRLARGMILPALPWEPYL*
Ga0005488J37274_104312Ga0005488J37274_1043121F001765EHLSSLRQEIADLRDLNARLSEKGGHTAVDQTALELRTNRLREIKQELSKILNRPDDPKVWWERSRRPQQPA*
Ga0005488J37274_104879Ga0005488J37274_1048791F103604EMKLTSVALCAFLMVLAGAGSRAAYGVTSKIIIKAPDPTCPPPQGTQSISFDGLVPNADGSSVNGGSVPIPVDGSTTFGDNEFANCTGETLDVLTVTIDDIPLNQQYIVLLSGDAFDGFSTGPISNSSETLELYCDPGFFGTTCDGLSGVAGQDNGVSFTIAPEPTEAPMLLLGIGGVFLLGLRARKGRKQLRVAGVV*
Ga0005488J37274_108003Ga0005488J37274_1080031F002272MNANYWEQRTALIRDGAVRVLSLSTPEEVDYWRDQLKAHRRNRHELEVMTWGNHASTLRGRADYGHLDEIAEYVFQFIRTSEGKLLKFGTVAFSKSVDRALARQVIDVVGTRN*
Ga0005488J37274_108260Ga0005488J37274_1082601F004142PDYIATEVKSEGSEGERYRVRDFWKGHRGFEIFRERFSEDFAQLDRRIVDELIEKQEFVGAYYEANEEDQGLS*
Ga0005488J37274_112072Ga0005488J37274_1120721F071907VIVTVAVPTVAPAEAVSVRVELALPFAGGVTGLVENVAVTPEGNPDALSVVAESN
Ga0005488J37274_112072Ga0005488J37274_1120722F003199LSSDPEVPINSMVVVPVGARLVALQITVTFTLPFAGGVTGLAEAVADTSVGNSLTLSSTAEWNPFTLVTVSVVETLPLSSIVKDDGDKDKVKFGVPEEAFTVNVIVAL*
Ga0005488J37274_112670Ga0005488J37274_1126702F056822MSRVNGDKSRYNRVRRQNIAKRMRNRKLMKNLEAQVKPAVAAAGSEPKPVVA*

 ⦗Top⦘



© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.