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 3300022181

3300022181: Enriched culture of PCE-dechlorinating microbial communities from Ithaca, New York, USA - SJ1



Overview

Basic Information
IMG/M Taxon OID3300022181 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0132855 | Gp0267134 | Ga0228535
Sample NameEnriched culture of PCE-dechlorinating microbial communities from Ithaca, New York, USA - SJ1
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size376029271
Sequencing Scaffolds11
Novel Protein Genes12
Associated Families11

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria2
All Organisms → cellular organisms → Bacteria4
All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Nitrosomonadales → Thiobacillaceae → Thiobacillus → Thiobacillus denitrificans1
All Organisms → cellular organisms → Bacteria → unclassified Bacteria → bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfovibrionales1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia1
Not Available1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameEnriched Cultures Of Pce-Dechlorinating Microbial Communities From Ithaca, New York, Usa
TypeEngineered
TaxonomyEngineered → Modeled → Simulated Communities (Microbial Mixture) → Unclassified → Unclassified → Defined Medium → Enriched Cultures Of Pce-Dechlorinating Microbial Communities From Ithaca, New York, Usa

Alternative Ecosystem Assignments
Environment Ontology (ENVO)Unclassified
Earth Microbiome Project Ontology (EMPO)na → na → na

Location Information
LocationUSA: New York
CoordinatesLat. (o)42.4447Long. (o)-76.485Alt. (m)N/ADepth (m)N/A
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F018395Metagenome / Metatranscriptome235Y
F020198Metagenome225Y
F025668Metagenome200Y
F025775Metagenome200Y
F039153Metagenome / Metatranscriptome164Y
F041847Metagenome / Metatranscriptome159Y
F059711Metagenome133Y
F072821Metagenome / Metatranscriptome121N
F073159Metagenome / Metatranscriptome120Y
F081507Metagenome114Y
F088355Metagenome / Metatranscriptome109Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0228535_1000041All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria398623Open in IMG/M
Ga0228535_1000060All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria317415Open in IMG/M
Ga0228535_1000282All Organisms → cellular organisms → Bacteria163991Open in IMG/M
Ga0228535_1000633All Organisms → cellular organisms → Bacteria → Proteobacteria → Betaproteobacteria → Nitrosomonadales → Thiobacillaceae → Thiobacillus → Thiobacillus denitrificans87537Open in IMG/M
Ga0228535_1005606All Organisms → cellular organisms → Bacteria6423Open in IMG/M
Ga0228535_1006786All Organisms → cellular organisms → Bacteria5161Open in IMG/M
Ga0228535_1007299All Organisms → cellular organisms → Bacteria → unclassified Bacteria → bacterium4759Open in IMG/M
Ga0228535_1016118All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Desulfovibrionales2176Open in IMG/M
Ga0228535_1023819All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia1527Open in IMG/M
Ga0228535_1074743Not Available610Open in IMG/M
Ga0228535_1074831All Organisms → cellular organisms → Bacteria610Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0228535_1000041Ga0228535_100004152F018395MKYDRADTAYAEKAHELSLKNRNWLRHGKGTTAGKIDQMLLDGATIEQMAKGAKTTKATVSVHLTHLRKEHMLAIVKKDGVLRYDVKKMNGKK
Ga0228535_1000060Ga0228535_1000060143F020198MITIPHRKIKSREATMTYLLDPARLRSFIVDLRAYLRSTQHLFQKKGCENDPRNCKHRGMHDRPEPVLFRRFHHFCYERGFDWEAAREMMELMLSDRFLCECEMVWRLSDDRVEERLAGKRR
Ga0228535_1000060Ga0228535_1000060293F041847MAMNEKKGMHFGKLVVDFANAPAAEEAGVAFIRGAAKAFGYGPEFLAKALDRYPTLERFAKALPADDRELVDLLLEERRLLSVINNLPCNISLSSYDYDGGRTLLFKIQPLEPRWDCENPYEEDDVRISVGAEGKTWLDEVAEMFDDRAPLTEDMDEVKGRLLGCMEEYIRLGDRILAIRRAIPAEKTHEAQKWAAYHSRIEAEQEVLAELLERWRATLGEIVDAGDLSRSQALLDLLVVYNVVNRRELAVGEDGAIYEKPLFGESYFTERAGLADEYYHNVLVYALVEFLKVPGNRRKLRKCRQCGAFFISPPGRPAGTECGRCGRRKGRGTGG
Ga0228535_1000282Ga0228535_100028234F088355MKNTINNIRLFASHKGQLVLAILTIALFVLAAGAPNATLGIGR
Ga0228535_1000633Ga0228535_100063371F025775MKQLLTFQGFPMVVVVGLIIWAWISILSVLIGSFF
Ga0228535_1005606Ga0228535_10056068F025668MTKESIIEAQEYLRVKTEYGCKRIIDIKSLLESHNDGEVIKFLKDYLREKEKTLKNMILIDKSHPKVDQIVAAMFRISMAIKSLEEGEGVIKLERSQQGTEESGRFHKRDSGGHSGTGKWQDAGHDGKDRKPGQAIQRAA
Ga0228535_1006786Ga0228535_10067863F059711MRNRTFHTSINLLIEPDTYQRLKMIAGLQKTTMSKFIREGIKLRLAQHDKENNSIVEG
Ga0228535_1007299Ga0228535_10072996F073159RRKKHAVRPGAGVMCNVCGVNCGKGGALKKHVEGAHKVDYKQYKTCFSGCVKTLIADSWDDSVKTSTGKIVITHVLVRRFIGDPSKRGVSWKNP
Ga0228535_1016118Ga0228535_10161182F081507MKKQFCIAIVIVAVLLLTAGMTSAAKLPNLVGTWSGGIHFVGWNSAADPQFYYASYVFTYEIENQDPATGNFYGHESGYPFTGNVSTNKVVTIIEYETAGEYRIITGKVSGKKITGTMQHWKPDQVDTGTFVLEKQ
Ga0228535_1023819Ga0228535_10238192F039153MLYSVITPEREQKYHTEVKFFNNSKQASRLNFSPLHKEIKQWAKSQGYTPKLYLRSVAVECINPSLPKEPECIMEDLIQVIANGQAYLIAITIYGPPYENNLNYILEEHAKLRKAIYVTAECLDDVICEIQDNEHNHKGVPCVPDIKSRRSFQGDYSILFSPENLTWKTARNERA
Ga0228535_1074743Ga0228535_10747432F025668VQEELRRVVYGGCGMTKESIIEAQEYLRVKTEYGCKRIIDIKSLLESHNDGEVIKFLKDYLREKEKTLKNMILIDKTHPKVDQIVAAMFRISMAIKSLEEGEGGIKLERSQQGTEESGRFHKRDSGGHSGPGKWQDARHDGKDRKPGQAVQRAA
Ga0228535_1074831Ga0228535_10748311F072821EIYLRAVEDHKCPHCGEKLNRRPRRLWQKAVSFAVPLRHYKCEGCYHRFFALSPRWKQMKKGERWLRVAATGVVWIAGIFIVFRILFSVLYAVMS
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