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 3300005515

3300005515: Combined assembly of arab plate scrape MF_Cvi (Combined Assembly)



Overview

Basic Information
IMG/M Taxon OID3300005515 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0053073 | Gp0061145 | Ga0077122
Sample NameCombined assembly of arab plate scrape MF_Cvi (Combined Assembly)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size2131587156
Sequencing Scaffolds36
Novel Protein Genes36
Associated Families30

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → unclassified Comamonadaceae → Comamonadaceae bacterium URHA00281
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae5
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → Variovorax → unclassified Variovorax → Variovorax sp. S21
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Reyranellaceae → Reyranella → Reyranella massiliensis1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → unclassified Rhodospirillales → Rhodospirillales bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria5
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales3
Not Available3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiales genera incertae sedis → Methylibium1
All Organisms → cellular organisms → Bacteria → Proteobacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → Ramlibacter → Ramlibacter tataouinensis1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → Acidovorax → unclassified Acidovorax → Acidovorax sp. Leaf731
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → unclassified Comamonadaceae → Comamonadaceae bacterium1
All Organisms → cellular organisms → Bacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Alcaligenaceae → Achromobacter → Achromobacter arsenitoxydans1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micrococcales → Microbacteriaceae → Curtobacterium → unclassified Curtobacterium → Curtobacterium sp. S61
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameArabidopsis, Maize, Boechera And Miscanthus Rhizosphere Microbial Communities From Different Us Locations
TypeHost-Associated
TaxonomyHost-Associated → Plants → Roots → Endophytes → Unclassified → Arabidopsis Root → Arabidopsis, Maize, Boechera And Miscanthus Rhizosphere Microbial Communities From Different Us Locations

Alternative Ecosystem Assignments
Environment Ontology (ENVO)Unclassified
Earth Microbiome Project Ontology (EMPO)Host-associated → Plant → Plant rhizosphere

Location Information
LocationUniversity of North Carolina, USA
CoordinatesLat. (o)35.9082Long. (o)-79.0499Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001574Metagenome / Metatranscriptome669Y
F006808Metagenome / Metatranscriptome364Y
F007245Metagenome / Metatranscriptome355Y
F012265Metagenome / Metatranscriptome282Y
F015908Metagenome / Metatranscriptome251Y
F024880Metagenome / Metatranscriptome204Y
F025373Metagenome202Y
F027546Metagenome / Metatranscriptome194Y
F030808Metagenome / Metatranscriptome184Y
F031609Metagenome / Metatranscriptome182Y
F034624Metagenome / Metatranscriptome174Y
F037437Metagenome / Metatranscriptome168Y
F039184Metagenome / Metatranscriptome164Y
F044538Metagenome / Metatranscriptome154Y
F044594Metagenome / Metatranscriptome154Y
F044595Metagenome154Y
F052711Metagenome142Y
F053413Metagenome / Metatranscriptome141Y
F053537Metagenome / Metatranscriptome141Y
F060695Metagenome132Y
F071622Metagenome / Metatranscriptome122Y
F074001Metagenome / Metatranscriptome120Y
F075003Metagenome / Metatranscriptome119Y
F076420Metagenome / Metatranscriptome118N
F083928Metagenome112Y
F092682Metagenome / Metatranscriptome107Y
F092690Metagenome / Metatranscriptome107Y
F094127Metagenome / Metatranscriptome106Y
F094368Metagenome106Y
F105520Metagenome / Metatranscriptome100Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0077122_10015725All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales10411Open in IMG/M
Ga0077122_10025303All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → unclassified Comamonadaceae → Comamonadaceae bacterium URHA00287454Open in IMG/M
Ga0077122_10083569All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae3125Open in IMG/M
Ga0077122_10087057All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae3034Open in IMG/M
Ga0077122_10089699All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → Variovorax → unclassified Variovorax → Variovorax sp. S22968Open in IMG/M
Ga0077122_10094083All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Reyranellaceae → Reyranella → Reyranella massiliensis2867Open in IMG/M
Ga0077122_10143682All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → unclassified Rhodospirillales → Rhodospirillales bacterium2092Open in IMG/M
Ga0077122_10144880All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria2080Open in IMG/M
Ga0077122_10145144All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales2077Open in IMG/M
Ga0077122_10150602Not Available2020Open in IMG/M
Ga0077122_10153688All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales1989Open in IMG/M
Ga0077122_10181385All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae1754Open in IMG/M
Ga0077122_10198698All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Burkholderiales genera incertae sedis → Methylibium1636Open in IMG/M
Ga0077122_10201876All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1616Open in IMG/M
Ga0077122_10226855All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1477Open in IMG/M
Ga0077122_10232545All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1448Open in IMG/M
Ga0077122_10256408All Organisms → cellular organisms → Bacteria → Proteobacteria1343Open in IMG/M
Ga0077122_10290956All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → Ramlibacter → Ramlibacter tataouinensis1217Open in IMG/M
Ga0077122_10324522All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales1117Open in IMG/M
Ga0077122_10329903All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → Acidovorax → unclassified Acidovorax → Acidovorax sp. Leaf731102Open in IMG/M
Ga0077122_10367719All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae1012Open in IMG/M
Ga0077122_10402878All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae → unclassified Comamonadaceae → Comamonadaceae bacterium942Open in IMG/M
Ga0077122_10436098All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria885Open in IMG/M
Ga0077122_10535719All Organisms → cellular organisms → Bacteria752Open in IMG/M
Ga0077122_10568173All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Alcaligenaceae → Achromobacter → Achromobacter arsenitoxydans718Open in IMG/M
Ga0077122_10572198Not Available714Open in IMG/M
Ga0077122_10590788All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium696Open in IMG/M
Ga0077122_10603896All Organisms → cellular organisms → Bacteria → Proteobacteria684Open in IMG/M
Ga0077122_10636259All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales657Open in IMG/M
Ga0077122_10638477All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales655Open in IMG/M
Ga0077122_10673607All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Burkholderiales → Comamonadaceae628Open in IMG/M
Ga0077122_10692153All Organisms → cellular organisms → Bacteria615Open in IMG/M
Ga0077122_10699346All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia → Micrococcales → Microbacteriaceae → Curtobacterium → unclassified Curtobacterium → Curtobacterium sp. S6610Open in IMG/M
Ga0077122_10768207Not Available567Open in IMG/M
Ga0077122_10771619All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium565Open in IMG/M
Ga0077122_10859574All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria519Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0077122_10015725Ga0077122_100157253F044538MRLIARFVVLMVAVFGLSIAFAWAWDRSDAPKTAQHA*
Ga0077122_10025303Ga0077122_100253032F071622MKDGRPNSTGDPERWRPGSAGRKGGGPKKQRGFVERATATGHSGYGSESVRPHLRDQLQLKALLPQPFPTPEQDNRKDEHHR*
Ga0077122_10083569Ga0077122_100835693F053537MKYMHKAIWQCDGNLVIRGNTRALLFRALEDARAGLAQREDAGELQRTLAALQQALGSYDGKLPSVVELLGDPVRDRISRNLLKG*
Ga0077122_10087057Ga0077122_100870572F092690MSTYVAVRHGALQARVMLGAPHENDAVNDSSFPEDRKARLVRNLLALRAVLAMEQMQTGRWSERIEELDQELASLGHDMKSTAAFATECLRRTFLLPRLVSRRKRAAHGLAKQPQPQE*
Ga0077122_10089699Ga0077122_100896992F044595LESVIVKSAYVVTANRPMNGLVAFVRAAAMKSIGGCASALHPSLPTSYQRLDRNEDQVHPGEGSA*
Ga0077122_10094083Ga0077122_100940834F053413MFLSPLGERLGEGAATDGARGTPSPNLSPKGERSKRRGRSC*
Ga0077122_10143682Ga0077122_101436822F015908MRYMMIAAVLGMLASQAQAESKKYRSVLIPEKSVQACSGWGQTYTVDVSNGVLTLGVNYARRLFSAPVDSDGKIAASYKDPSGGILKFIALGNGEYELSNPLVPCYYRLVPSASPPWNS*
Ga0077122_10144880Ga0077122_101448802F030808MNLNLSAFQSQEFIVGIAVAAILVSALIASSMFRNIALAVAAGGVVLLYLQGGVPALLATSAMLEKEIRALPEFSNGLIVGFAVAAVFLFGMQKRST*
Ga0077122_10145144Ga0077122_101451442F001574MTSLRLGTGALDFLNPNGLARPALEKFLGAWFACFVVMAHGDFANAVSLDHARIASICGTIGALVAVVLLTQMDRTTISLPKQMTVSAFATFIGDVFAHPSHFPPQWGEPLVTAAVSAAIAAALWQARRLLKSL*
Ga0077122_10150602Ga0077122_101506021F037437MMRRTTVCVVVLGVLALGVLALGIMAAAQTAAADVSIIGKWQIVEAVPAPWAPADQQAALAAQGKNLLKTEVTFAQGSLASKFKPFNCKSKVLYEPNSIEVDALFQGNLPEPNPAAAAARLGFPRADIPGVDVRCLKAQYTFHFRDPNTALINLDRVIYTFKRQ*
Ga0077122_10153688Ga0077122_101536881F027546MKTAGEPDPAPFQPLGDRVQAPKPARPEWQPLAHAPSIEVNRQGQLRTNLPLPK*
Ga0077122_10181385Ga0077122_101813852F094368MEPIAYLDPEVRPPEYRVPRGRSGVGAQSALETLLRDLERIRRAKEAYGDLARTQENSQFLF*
Ga0077122_10198698Ga0077122_101986982F092690MNTESEVDRNARLVRNLLALRMVLCMDQMQTGKWGDRIEEIDQELATLGHDMKSTAACATESLRRTFLLPRLVSRRSRAAHRPPARAVPRG*
Ga0077122_10201876Ga0077122_102018762F060695MRASASLLWLGAAVTLSAFVSAYVVAMFVADRLADCTTPAVLPVAYCVMLGYAIMGAQIGINDLVNSGRPPPYLEELQWASFILIGLGIVWVGFAYSIWVVVGFLMLFFVPLGAVYLIVGMPVFAAVMRLYERAVPDLDAAAAWPATVLAVAPFVVFSLHDIEARCGVLQ*
Ga0077122_10226855Ga0077122_102268551F006808MPIIDIHTHCAPPRPPGDRFGVAEALRGVPVGRNTITNYRGLPAVSYYEMGDFELQQEACAKAGVTHRLISTPFAAEVMAAISKSPSLDICKAVNDGIAGIVARAPNNWGMGTLNPLDKEHIAEGERCLKELKFKGLLICSSWHGRFLDGE
Ga0077122_10232545Ga0077122_102325452F039184MDEDFSFMRACDLARTADENFKLAWIAEIEASWQVSDLDHGDFGFILVMADGRRLYWRYTSDDPGAGRVEDLVVSELAAGEVPEGDAPWSRPELLNKRLAVLRRLA*
Ga0077122_10256408Ga0077122_102564083F012265DGVGGPLKGGAVDPPEFARQIAAALHERKGTVGKAILRELVTEFVKPTVADPQILSTDRAIAILEQLLTTVLPQLKESEEFNRLAKTVLGEEIEQRRNLRARRLEDTAT*
Ga0077122_10290956Ga0077122_102909562F074001MNQLPSQPVIDQAKSKTDQVQRDLEVASAELGLTHGALERELPPGVKKGDVAWALHQNKVLEKKVQQAAEELEEVTELLDQAKDDPA*
Ga0077122_10324522Ga0077122_103245221F007245MRALRTAAIALVLAAVATAPAFGVASVSVFGLKAPEEISGFTLNDSTNFEKLKPGDGYGLDYSQSGWKLDVYIYDLKRAAIPDDVKSAIVRAEFERARADTFLAQPRGIYAQVYLKRNFTIDDSAKRTRFQCAAFHLRRDGAKPQDGYLCVTSWNNKFVKFR
Ga0077122_10329903Ga0077122_103299033F083928MNILAWLNSLRPAIPMSVERPCELMSTSELRRHIQQGAVLINGERVAWGDPVVFPVLSLVFFPKSPTRRTTII*
Ga0077122_10367719Ga0077122_103677192F074001MSQVPSQPAIDNARSKTDQVQRDLEVASAELGLTHGALERELPPDVKKGDVAWAIHQNKILERKVQQAAEELEEVTELLDQARGDPS*
Ga0077122_10402878Ga0077122_104028782F105520MDASSVQLARTELDFLQRLLLDLQRQLEHGEPETAAALELALAMLQWNGEAPPELDQQVGLGAAIEMKLGLDALCAWRQWRDQCRKRAALTP*
Ga0077122_10436098Ga0077122_104360982F034624QPSEVDRAAVAHMGATAPKAVYVVKVKLQAKPPVTSMAWALYIDDERIPKYWEYTDGIYFTVPDSQFFSRHKGKQLRFSRNGTDFFDTGVKLAPAPSVAHGSAARLPLQADVLK*
Ga0077122_10535719Ga0077122_105357192F025373MADEGFPRIYAVAKWVVIGSLAVLAILAGAFWTLLLGGFAESGFRAEQPRGGREEAVEITPECAWPYSVHDEKAKAVCRMFYHLTPEQRAQVLKARQ*
Ga0077122_10568173Ga0077122_105681731F001574MTSLRLSADARDFLNPNGLARPALEKFAGAWLACFVVMAHGDFANALSLDNARIASICGTIGALVAVALLTQMDRTTISLPRQMTISAFATFIGDVFAHPSHFPPQWAEPLVTAGVSAAIAVALWQARRLIKSL*
Ga0077122_10572198Ga0077122_105721982F030808MNLNLSAFQSQEFIVGIAVAAILVSALIASSMFRNIALALAAGGVVLLYLQGGVPALLATSAMLEKEIRALPEFSNGLIVGFAVAAVFLFGMQKRSA*
Ga0077122_10590788Ga0077122_105907882F052711MVRGGRAALVAAMMAATGTPVAGQVLDATYRGTMVCEKLPFTSGQMREAIEVTISGGAARYSHVVRLRNAAVEAAAEQGTGTVSGTKIDLQGGWKGGSQQYEAKYSGSFVRR
Ga0077122_10603896Ga0077122_106038961F075003MLRLSIACVLVLAVSLPASANWTRAQRAQFLGQCVESCQSTLNLPDSKRRVCDATCGCVADQAETLVTPADMYALDEAAAAGRTTETMQKI
Ga0077122_10636259Ga0077122_106362592F092682MHGRRQHTTAQKVRSSAAWRVCACIIDRSFVVIRLKHLAV*
Ga0077122_10638477Ga0077122_106384771F044594MSVLAHTSAIAYRLAPRAARQPGQLRQLLDRFLQWRQHRAEQDIAIHLGLTGGHITDEIERRISEHLMSRGGFRG*
Ga0077122_10673607Ga0077122_106736072F053537MKYMHKAIWQADGNLVIRGNTRALLFRALDDARSQLGDGADQQLVRTLQALQDVLGRYDGHLPSAVELLGDPQREQLSRNLLKG*
Ga0077122_10692153Ga0077122_106921531F031609PHIEKNLADEVFRDLFIPDEPKPETEHPDMVPSVKHLHGEPVALSDPSDQNFI*
Ga0077122_10699346Ga0077122_106993461F024880TSEQGLVDFFAKARVDAGNGQTAEATNSVASSGEMLGKLREFVEKAHHVDAKNQATRAKQRVAAAEAKTDLASLDTLGSLGKFNSLAQFNPIGQSGSFGQLASLNQFTSAGLPPGPASASLGPGPGLESKGRLSAMADKMTNDLMDSAIHHMWTQVVVHGTTSVTKSVMTLLKGQ*
Ga0077122_10768207Ga0077122_107682071F094127AIVRAEFERARADTFFAQPRGIYAQVYLKRNFTIEDSAKRTRFQCAAFHLTRDGAKPQDGYLCVTSWNNKFVKFRLTTLADSTTEAAARNYVNAWVPVLWGSGSKVEVEKPKVKKSAAARLGRAPRRAQ*
Ga0077122_10771619Ga0077122_107716192F039184RTADADFKLAWIAEIEVSWQVTDLDHGDFGFILVMADGRRLYWRYTSEDTGAGRPEDLVASELAPGEIPEGDAPWSRPETLNKRLAVLRRLT*
Ga0077122_10859574Ga0077122_108595742F076420DRAVDPPEFARQIAAALHERKGTVGKAVLRELVSEFVKPIVSDPQILSSDRAIAILEQLLTTVLPQLKESEEFNHLAKTVLGEEIEQRRQLRARGLEDTAT*
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