Sample 3300001640

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 3300001640

3300001640: Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF010

Overview

Basic Information
IMG/M Taxon OID	3300001640 Open in IMG/M
GOLD Reference (Study \| Sequencing Project \| Analysis Project)	Gs0085736 \| Gp0057261 \| Ga0003849
Sample Name	Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF010
Sequencing Status	Permanent Draft
Sequencing Center	DOE Joint Genome Institute (JGI)
Published?	N
Use Policy	Open

Dataset Contents
Total Genome Size	7199746
Sequencing Scaffolds	20
Novel Protein Genes	20
Associated Families	18

Dataset Phylogeny
Taxonomy Groups	Number of Scaffolds
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1
All Organisms → cellular organisms → Bacteria	3
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	5
Not Available	4
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	2
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia	1
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Phyllobacteriaceae → Mesorhizobium → Mesorhizobium albiziae	1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
Name	Forest Soil Microbial Communities From Harvard Forest Long Term Ecological Research (Lter) Site In Petersham, Ma, For Long-Term Soil Warming Studies
Type	Environmental
Taxonomy	Environmental → 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 biome → land → forest soil
Earth Microbiome Project Ontology (EMPO)	Free-living → Non-saline → Soil (non-saline)

Location Information
Location	Harvard Forest LTER, Petersham, MA, USA
Coordinates	Lat. (^o)	42.532967	Long. (^o)	-72.209488	Alt. (m)	N/A	Depth (m)	N/A
Location on Map

Zoom:	Powered by OpenStreetMap^©

Associated Families

Family	Category	Number of Sequences	3D Structure?
F001204	Metagenome / Metatranscriptome	748	Y
F003278	Metagenome / Metatranscriptome	496	Y
F003565	Metagenome / Metatranscriptome	479	Y
F004146	Metagenome / Metatranscriptome	451	Y
F005245	Metagenome / Metatranscriptome	407	Y
F005494	Metagenome / Metatranscriptome	399	Y
F007615	Metagenome / Metatranscriptome	348	Y
F009911	Metagenome / Metatranscriptome	311	Y
F020247	Metagenome / Metatranscriptome	225	Y
F020612	Metagenome / Metatranscriptome	223	Y
F021165	Metagenome / Metatranscriptome	220	Y
F024627	Metagenome / Metatranscriptome	205	Y
F028638	Metagenome / Metatranscriptome	191	Y
F032757	Metagenome / Metatranscriptome	179	Y
F036891	Metagenome / Metatranscriptome	169	N
F038357	Metagenome / Metatranscriptome	166	Y
F039789	Metagenome / Metatranscriptome	163	Y
F082128	Metagenome / Metatranscriptome	113	Y

Associated Scaffolds

Scaffold	Taxonomy	Length	IMG/M Link
JGI20244J16305_100047	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium	1974	Open in IMG/M
JGI20244J16305_100055	All Organisms → cellular organisms → Bacteria	1910	Open in IMG/M
JGI20244J16305_100172	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	1410	Open in IMG/M
JGI20244J16305_100278	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	1138	Open in IMG/M
JGI20244J16305_100334	All Organisms → cellular organisms → Bacteria	1016	Open in IMG/M
JGI20244J16305_100440	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria	893	Open in IMG/M
JGI20244J16305_100457	Not Available	869	Open in IMG/M
JGI20244J16305_100633	Not Available	711	Open in IMG/M
JGI20244J16305_100672	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	688	Open in IMG/M
JGI20244J16305_100673	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	687	Open in IMG/M
JGI20244J16305_100758	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	645	Open in IMG/M
JGI20244J16305_100760	Not Available	644	Open in IMG/M
JGI20244J16305_100767	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	639	Open in IMG/M
JGI20244J16305_100982	All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia	573	Open in IMG/M
JGI20244J16305_101048	Not Available	558	Open in IMG/M
JGI20244J16305_101072	All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium	553	Open in IMG/M
JGI20244J16305_101148	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Phyllobacteriaceae → Mesorhizobium → Mesorhizobium albiziae	543	Open in IMG/M
JGI20244J16305_101204	All Organisms → cellular organisms → Bacteria	535	Open in IMG/M
JGI20244J16305_101331	All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria bacterium	515	Open in IMG/M
JGI20244J16305_101439	All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium	500	Open in IMG/M

Sequences

Scaffold ID	Protein ID	Family	Sequence
JGI20244J16305_100047	JGI20244J16305_1000473	F003565	VAVRPEGANHQWRKIPPGELSIDPVANERLGWVTGRAGAS*
JGI20244J16305_100055	JGI20244J16305_1000553	F038357	MCPGDPLGNHRQRPIAVSLVFEPVLAHEDGMGLTAPLPHQGRAGLQRSAGVERTSAFLELSRQNLQAALQGGGRAAMGTLLQLIGEPPDDQIATEAQRRADVMQSPPRTPQLLCRLTDQLSDFAINLCQCQTSQPVLPAVVCTERLARVLASRSVVEWGFHGLAGSAMRYTRPRSSLAEARGSPSFFFKVPEKTPRTV*
JGI20244J16305_100172	JGI20244J16305_1001722	F038357	MGVSAPLPHQGRAGLQHSAGIERTSASLELSRQNPQAALQGAGWTALGALLQLIGEASDDQIATEAQRRSGVMQCPPRTPQLLCRPIDQSGNLAGFKLGQVPVSKSVVPDVDWTETGGRLARVLASRSVVNWRFHRFAGSAMRYTRPRSSLAEASVSPSFFFXVPEKTPRTV*
JGI20244J16305_100278	JGI20244J16305_1002782	F020247	MTFVGSVHNPKIMLGMLVKVLCGDAIATRRRLPREGNVTFEDLMRGTSDFDVRXVTLEILTSMRYLLPIMVGIVAVIATMRSSSLSWSHDTCRIDGEVGSLSNKSVLERLRY*
JGI20244J16305_100334	JGI20244J16305_1003342	F021165	MSRFWGHKQGGIELDFQVNNQTYFIDLADEEGKWLVFAETPTGVRRIPVYVDEPDFEDLTVVIDDKERRK
JGI20244J16305_100440	JGI20244J16305_1004401	F024627	MPYSNLALDADRENGPAARSFAADAHDCIMVRIKRPYRIQVCGTKMCPSGELPSDPQQTDRHRPDAEAMQKAPVAGHHRSACSGVK
JGI20244J16305_100457	JGI20244J16305_1004571	F039789	LWTVGCADPRLTAQARSPMDKPGKTLRVSPTLPTG
JGI20244J16305_100633	JGI20244J16305_1006331	F001204	MVRTVPRHSRARKGDTPAHSRSPDVKRQAIFLARWAGRGAFKATALVLAFVIIVALWLWNASLLTTAADQNLRIIKTLTQLLPPDWASKAESALRIFGADRALLLVEGIAIAKLIMLAIAYPFRRGR*
JGI20244J16305_100672	JGI20244J16305_1006722	F028638	MDTTASSFTARNNAKRAAEKMIANGKAPAVNYGIRPRDDGRFEIVWKTAPTTGEVEAEIATAATAAEDGHYNTNPRFSVNEDPSDAPPNAGAEEVAAATGNEPAAS
JGI20244J16305_100673	JGI20244J16305_1006731	F004146	SRSRYALDPAVIAAGKLPDKAPVVTSAANPHYQKRFDELHKLAAAGDWAAVRDYKVSGSNSYSKLVARYQQDLLALHAASGDAQ*
JGI20244J16305_100758	JGI20244J16305_1007581	F082128	RMLSTAELQKILGVKIEKSAEIVDDNQPGCAYYTDSQSVSQLQRMAMAQAKKQTDEVNQRPGPKPDNLPALMKNANDLEGIVKTLGMTQPPADGRVFSFTLERGVSADAWSGMRLTEAAVPGFEEVPGVGDHAMIGAFGHAFYVQKGDAVITMSTMFVPDARMRGSQIGKTILGKL*
JGI20244J16305_100760	JGI20244J16305_1007601	F036891	MNGTGPQMKKLLERARAYLAGLEADRQTALALSEQKAEEAKLIKARQEGFQAALALLGETSAGNDSSGKDRELAADPRGGDDRAAAEEQPRRRGRRPIRELILRELSFSGQPMTAAQIGKAIEYLADRTEIALERMQQDGQVVRNEAGRWSIGLSAVPH
JGI20244J16305_100767	JGI20244J16305_1007671	F004146	VVTSAANPHYQKRFDELHKLAAAGDWAAVRDYKVSGSNSYSKLVARYQQDLLALHAASGDAQ*
JGI20244J16305_100982	JGI20244J16305_1009821	F032757	VAWAGFFIAVASAVMLARFGEAHHSEDVALTDAVARRQANAGPAAAELLSWWPVDLQLFPALPETTGVS*
JGI20244J16305_101048	JGI20244J16305_1010481	F009911	LTWVHDNLAHVLQHSQADETSGTWTGLACPGHSLALGADVDNAVLQEMAAGSDITDLIWEAPDQLTAEHAQAFKDAMHAHLAGDADRTGQLWENLQA
JGI20244J16305_101072	JGI20244J16305_1010721	F003278	MLKISLIDGARQRLLIVEGKLIAPWAAELRSACAEARVDLHGRKLIIEMKHITTISQEGENVIVELINEGNKFRCRGVFTKHVLKEL
JGI20244J16305_101148	JGI20244J16305_1011482	F007615	MMDRPAGRRQLDLLVRAANAREQNRIPPPLRAEVRFLLTLLMAEHLAXXXXLPVEASNEXDYA*
JGI20244J16305_101204	JGI20244J16305_1012041	F020612	MGIDDESSHPALCSEVADGVTRFLIYLGGVCLFREPDAVNLPVRFDEREQETGSSQTGLRRARES
JGI20244J16305_101331	JGI20244J16305_1013311	F005245	MLGGSLLAHKAQQSHPSKTGLFDVTIAVELQQMHAKDLSTTVERLTSVIGPKLAGDRASFHLNVKPAVDKLDLQPSL
JGI20244J16305_101439	JGI20244J16305_1014391	F005494	EATIVSRLDPDLWRAEYPGGGSGMFREADIRAYDPERDANIAEQPRRAKATTPQNSSRSRYAIDPETITAGRLPQRAPVVTSAANPHYQKHFDRLFDLAKAGDWDGVRNYEVKGSNSYSKMVARYRQDLLAVHAASEAPQ*

© 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.