Sample 3300004556

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 3300004556

3300004556: Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 1_LOW4 (Metagenome Metatranscriptome)

Overview

Basic Information
IMG/M Taxon OID	3300004556 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0114290 \| Gp0111153 \| Ga0066489
Sample Name	Freshwater sediment methanotrophic microbial communities from Lake Washington under simulated oxygen tension - Sediment Metatranscriptome 1_LOW4 (Metagenome Metatranscriptome)
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	51580484
Sequencing Scaffolds	21
Novel Protein Genes	27
Associated Families	17

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	2
Not Available	10
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	7
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1
All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Halobacteria → Haloferacales → Halorubraceae → Halorubrum → Halorubrum coriense	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
Name	Freshwater Sediment Methanotrophic Microbial Communities From Lake Washington Under Simulated Oxygen Tension
Type	Environmental
Taxonomy	Environmental → Aquatic → Freshwater → Sediment → Unclassified → Freshwater Sediment → Freshwater Sediment Methanotrophic Microbial Communities From Lake Washington Under Simulated Oxygen Tension

Alternative Ecosystem Assignments
Environment Ontology (ENVO)	freshwater lake biome → freshwater lake → lake sediment
Earth Microbiome Project Ontology (EMPO)	Free-living → Non-saline → Sediment (non-saline)

Location Information
Location	USA: Lake Washington, Seattle, Washington
Coordinates	Lat. (^o)	48.3807	Long. (^o)	-122.1599	Alt. (m)	N/A	Depth (m)	N/A
Location on Map

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Associated Families

Family	Category	Number of Sequences	3D Structure?
F001233	Metagenome / Metatranscriptome	741	Y
F001296	Metagenome / Metatranscriptome	728	Y
F001633	Metagenome / Metatranscriptome	660	Y
F003427	Metagenome / Metatranscriptome	487	Y
F007695	Metagenome / Metatranscriptome	346	Y
F010923	Metagenome / Metatranscriptome	297	Y
F016975	Metagenome / Metatranscriptome	243	Y
F023129	Metagenome / Metatranscriptome	211	Y
F024439	Metagenome / Metatranscriptome	206	Y
F041780	Metagenome / Metatranscriptome	159	Y
F042356	Metagenome / Metatranscriptome	158	Y
F044534	Metagenome / Metatranscriptome	154	Y
F047066	Metagenome / Metatranscriptome	150	Y
F053640	Metagenome / Metatranscriptome	141	Y
F056352	Metagenome / Metatranscriptome	137	Y
F076133	Metagenome / Metatranscriptome	118	Y
F082737	Metagenome / Metatranscriptome	113	Y

Associated Scaffolds

Scaffold	Taxonomy	Length	IMG/M Link
Ga0066489_1008336	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	776	Open in IMG/M
Ga0066489_1008496	Not Available	711	Open in IMG/M
Ga0066489_1008717	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	663	Open in IMG/M
Ga0066489_1012378	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	590	Open in IMG/M
Ga0066489_1015161	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	646	Open in IMG/M
Ga0066489_1015514	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Opitutae → Opitutales → Opitutaceae → Lacunisphaera → Lacunisphaera limnophila	613	Open in IMG/M
Ga0066489_1015714	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	529	Open in IMG/M
Ga0066489_1016080	Not Available	515	Open in IMG/M
Ga0066489_1016126	Not Available	768	Open in IMG/M
Ga0066489_1017668	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	707	Open in IMG/M
Ga0066489_1019908	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	521	Open in IMG/M
Ga0066489_1023867	All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Enterobacterales → Enterobacteriaceae → Enterobacter → Enterobacter cloacae complex → Enterobacter hormaechei	570	Open in IMG/M
Ga0066489_1027436	Not Available	520	Open in IMG/M
Ga0066489_1032676	Not Available	512	Open in IMG/M
Ga0066489_1109271	Not Available	548	Open in IMG/M
Ga0066489_1123989	Not Available	503	Open in IMG/M
Ga0066489_1124518	Not Available	755	Open in IMG/M
Ga0066489_1128435	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	626	Open in IMG/M
Ga0066489_1131754	Not Available	548	Open in IMG/M
Ga0066489_1132816	All Organisms → cellular organisms → Archaea → Euryarchaeota → Stenosarchaea group → Halobacteria → Haloferacales → Halorubraceae → Halorubrum → Halorubrum coriense	570	Open in IMG/M
Ga0066489_1134950	Not Available	717	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
Ga0066489_1008336	Ga0066489_10083361	F001633	VRHALFPGGTRLGALAFAGGVLPDATLRGMRMSRSHGGTVLTVAGRDLSSEASAPGSEIPCREDHAGRGADTPAIFIVSRPHPYHGDGTGFWPVVGPALRV*
Ga0066489_1008496	Ga0066489_10084961	F003427	MVETRISNHKRVSTWFAGRRPQTPAEASLEASLEILRPQGAGRPCYEAEGTPLAVENSVGKPAA
Ga0066489_1008717	Ga0066489_10087172	F001633	ATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSDAPCRERHAGRGADTPATFIFSRLHRYHGDGASLWLAVGPALRV*
Ga0066489_1012378	Ga0066489_10123782	F053640	PPLQAAQADERHISPVPLAGVVSGQFTHESGTERQGAIRNRVEPSQAHGRFRPVCRRSYPRGFWLLLRRPERSHGTRRANPAKRPRSPYEGAQGNRDSGERADLAKSVKPPQWGGVKNHVTPLQKRKQP
Ga0066489_1015161	Ga0066489_10151612	F053640	LKNVTESTAGIIPGDRGMEGDSWCCPPLQAAQAVERHISPVPLAGVVSGQFTHESGTERQGAIRNRVEPSQAHGRFRPVCRRSYPRGFWLLLRRPERSHGSRRANPAKRPHSQHEGGAQGSRDGGERADLAKSVKPPQGGGVKNHVTPLQKRKQP*
Ga0066489_1015514	Ga0066489_10155141	F044534	GIYHQFLWPESCPVSSHTNQELSHEARLETAPSGVRPTGRFDPCADAVTPEGFGCYCADQNAVAIPGGTTPPKGPARSTSRARKGVTTAGRERT*
Ga0066489_1015514	Ga0066489_10155142	F001633	DATLRGMRMFRSHGGTVLTVTGRDLLSEASSPGSDAPCRERRAGRGADTPAIFIVSRRHLYHGDGTSFWPVVGPALRV*
Ga0066489_1015714	Ga0066489_10157141	F001633	GTRLGALAFAGGVLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSVASCRKRHAGRGADTPAIFIVSRRHRYHGDGTSFWLAVGPA*
Ga0066489_1016080	Ga0066489_10160801	F001296	MEVAERRQPLWASEKPLRVTGSGQEAASGEPGSIDPGAGENGQRGAERRIVRRFCSRCSMPCMPVES
Ga0066489_1016080	Ga0066489_10160802	F010923	DPQPQLSSGRAAGSERKSGGFVRWTGKQQTRLNTLIPRDVKVPEGSGDGRRGRPNRVVEVQRARGSETAATGANRDAVVEPKGRTGTEANLEGSEVAGWEL*
Ga0066489_1016126	Ga0066489_10161262	F007695	VKRRDPWHGANALSKAAADLGLMVETRDENHRRVSTWFAGRWRNHQLKRAEKPHSKSCRRKALDGPATRPKTPLAVENGVGKLTAPEKGAPNVSPGKRAWRT
Ga0066489_1017668	Ga0066489_10176681	F044534	WWQLVPPSPPNRVSGMAGIYHQFLWPESCPVSSHTNQELSREARLETAPNGVRPTGRFDPCADAVTPEGFGCYCADQNAVAISGGTTPPKGPARSTSRARKEVTTAGSERT*
Ga0066489_1017668	Ga0066489_10176682	F001633	GTRLGALAFAGGVLPDATLRGMRMFRSHGGTVLTVAGRDLSSEASAPGSATPCRERHARRGADTPAIFIVSRRHRYHGDGTSFWLAVGPALRV*
Ga0066489_1019908	Ga0066489_10199082	F001633	LRGMRMSRSHGGTVLTVAGRDLSSEASAPGSVAPCRERHARRGADTPATFIVSRRHRYHGDGASFWLAVGPA*
Ga0066489_1023867	Ga0066489_10238671	F001633	VRHALFPGGTRLGALAFAGGVLPDATLRGMRMFRSHGGTVLTVADPDLSSEASAPGSDAPCRERHAGRGADTPATFIFSRLHRYHGDGTSLWLAVGPALRV*
Ga0066489_1023867	Ga0066489_10238672	F076133	TGRFDPCADAVTPEGFGCYCADQNAVTVSGGTTPPKGPARSTSRARKEIGTAGRERT*
Ga0066489_1027436	Ga0066489_10274361	F082737	QLAPQPACQV*ACHIQHAGRCPRLAPRPRCFSVGASMLGGPPASLPVRSQNLETDFHSPTKTNLLPDRRGGVRVPALPLQLCGTLAVSPVRSDLHPRPVSRTAWDFYDQNPLLPDPAPLLPASLNRRSPLGFFAPPDQSARSRWPTGNLLSATPDLPSLPTGGRIRYQHQRII
Ga0066489_1032676	Ga0066489_10326761	F042356	GETQLPRGYPVATVHQHGADDSGGSNQPFGTAQRKPSKGGQKERLHREGHADLAGRVKTFRASAMLKTTPLGCERKAT*
Ga0066489_1032676	Ga0066489_10326762	F047066	VALANAPSKAVADQSQVVKTRRRNRRRVLTWFASRWRNHQPKRAEKPHSKFNVVALDGPATRPKTPLAVENGVGKPAAPLRWER
Ga0066489_1109271	Ga0066489_11092711	F041780	VAACSPTGMHGQNTAHQMAGPKSLCSPRPPLGGSASTLWAQPASHSNRNRNLETAFLLPCDDSPYPELRDRIKRSQPASSISLPSSIRIRSVLNSLPVALGFRRGHGHKTRFPLATRQSRPILRPPLPFRVSPLPDHNAQSDSDREVYLGKTPDIPSLPERINE*
Ga0066489_1116425	Ga0066489_11164252	F056352	SKIIPGNWGKVGQGWNARPLQEAGRKARRAEAEFTSSSGDSRVVSYAIQELRGEGRLEAAPSRVK*
Ga0066489_1123989	Ga0066489_11239891	F001233	VSRIIPGDWGKVESGWLAQLLLERTARFEDGGRIHQFLWRRSRAVSKREKGTEG*
Ga0066489_1124518	Ga0066489_11245181	F016975	VKEITDVSAPGSQAGGATTSPSELKSLTQYFSGLQNGTLDGPATRPKTPLAVENSVGKL
Ga0066489_1128435	Ga0066489_11284351	F023129	VKRRDPWPRANALSKAAADPELSGGDADEQSQTCLYLVRKPVAQPPVQAS*
Ga0066489_1131754	Ga0066489_11317541	F041780	VAACSPTGMHGQNTAFMTGLNSLCSPRPPFGGSASTLWAQPARHSNRNRNLETAFLLTCGDFPYPELRDKLKRSQPASSISLPCPIRIRSVLNSLPDAFGFRRGHGHKTRFPLAARQSRPILEPPLPFRVSPPPDHNAQSDSDREVYLGKTPDIPLLPERINE
Ga0066489_1132816	Ga0066489_11328161	F024439	DKSVEAPPGVSASSQLFDRDVAVPGTTLSGLTGLSERSARRSGAIGSPPPPRRLYDHEEFRRSTVRAVRRPPGSSRRLCHPLRVRAEMPSLAMPGQVAPPGVSCPFSDISGGIRITRVCLTRHDPSSGFLAPSTGSSPSSLADSLGPLPLLGFSLVQLFRAAGPVRCRTPCVPSSAVPDSLELGIRGL
Ga0066489_1134950	Ga0066489_11349501	F042356	LSESQLPRGYPVATVYQHGAGDSGGFNKPFETAKRKTPKGGQKERTAREGHGDEAGPVKTFQEPAMLKTTPLACERKAT*

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