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 3300001658

3300001658: Forest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF048



Overview

Basic Information
IMG/M Taxon OID3300001658 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0085736 | Gp0057373 | Ga0003887
Sample NameForest soil microbial communities from Harvard Forest Long Term Ecological Research site in Petersham, Massachusetts, USA - MetaG HF048
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size4088584
Sequencing Scaffolds9
Novel Protein Genes11
Associated Families11

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
Not Available3
All Organisms → cellular organisms → Bacteria → Proteobacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium2
All Organisms → cellular organisms → Bacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei1

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 biome → land → forest soil
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Soil (non-saline)

Location Information
LocationHarvard Forest LTER, Petersham, MA, USA
CoordinatesLat. (o)42.550409Long. (o)-72.180244Alt. (m)N/ADepth (m)0 to .1
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000083Metagenome / Metatranscriptome2471Y
F003565Metagenome / Metatranscriptome479Y
F004146Metagenome / Metatranscriptome451Y
F005285Metagenome / Metatranscriptome406Y
F020247Metagenome / Metatranscriptome225Y
F022035Metagenome / Metatranscriptome216Y
F023944Metagenome / Metatranscriptome208N
F035094Metagenome / Metatranscriptome173Y
F036891Metagenome / Metatranscriptome169N
F037452Metagenome / Metatranscriptome168Y
F039789Metagenome / Metatranscriptome163Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
JGI20282J16327_100165Not Available1344Open in IMG/M
JGI20282J16327_100208All Organisms → cellular organisms → Bacteria → Proteobacteria1260Open in IMG/M
JGI20282J16327_100230All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium1209Open in IMG/M
JGI20282J16327_100317All Organisms → cellular organisms → Bacteria1016Open in IMG/M
JGI20282J16327_100417Not Available868Open in IMG/M
JGI20282J16327_100519All Organisms → cellular organisms → Bacteria754Open in IMG/M
JGI20282J16327_100535All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium741Open in IMG/M
JGI20282J16327_100942Not Available545Open in IMG/M
JGI20282J16327_101010All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei525Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
JGI20282J16327_100165JGI20282J16327_1001651F023944MMVQSFVAAFAKAARVSDVPEEAIMSDTREPSYMFLAAEWNRSSVSERAYLLAMLFGREFEVEANDLSLQIASLAMTMVEPDGSAALIARVDLG
JGI20282J16327_100165JGI20282J16327_1001653F000083MSTLDEITQEKQRVSEALARIDAQRQKLAGQLGELEATERVLARYSTGTKRTVSAKSPPSPTKAVAPAQRQRGRRPATTAKPGDGRRTSATLSDQVLALATGRTQHEIASACKGARPNHVGAAISRHKRAGRIEERDGKLYASQATEAAQHAVV*
JGI20282J16327_100208JGI20282J16327_1002081F039789LWTVGCADPRLTAQARSPMDKPGKTLRVSPTLPTGRRLPTSFT
JGI20282J16327_100230JGI20282J16327_1002302F020247MTFVGSVHNPKIMLGMLVKVLCGDAIATRRRLPREGNVTFEDLMRGTSDFDVRTVTLEILTSMRYLLPIMVGIVAVIATMRSSSLSWSHDTCWIDGEVGSLSNKSVLERLRY*
JGI20282J16327_100317JGI20282J16327_1003171F035094WLTENELSDLSRLWHDGCVKATIETQDVDRNHSSEV*
JGI20282J16327_100417JGI20282J16327_1004172F036891MNGTGPQMKKLLERARAYLAGLEADRQTALALSEQKAEEAKLIKARQEGFQAALALLGETSAGNDSSGKDRELAADPRGGDDRAAAEEQPRRRGRRPIRELILRELSFSGQPMTAAQIGKAIEYLADRTEIALERMQQDGHVVRNEAGRWSIGLSAVPHTNGRAVRATNGKLVVALDA*
JGI20282J16327_100519JGI20282J16327_1005191F005285MAGSWSDMNQGSLFGKGTAFMIDERSEEPCPKGDRAFVRAKKRGNARGAKGGRKVEA*
JGI20282J16327_100535JGI20282J16327_1005351F004146RARQPRRAKAAGRRAASRSRYALDPAVIAAGKLPDKAPVVTSAANPHYQKRFDELHKLAAAGDWAAVRDYKVSGSNSYSKLVARYQQDLLALHAASGDAQ*
JGI20282J16327_100942JGI20282J16327_1009422F037452MVLVSLMGSSFLSEVCDTSILRAGLSTHYWGPLSWLRASRLLHPRSGLERSDFVLW
JGI20282J16327_101010JGI20282J16327_1010101F003565VAVRPEGANHQWRRNPPGELSIDPVADERLMRVTAWVGAS*
JGI20282J16327_101106JGI20282J16327_1011061F022035PDPNAVVGEQSLSSKLLDYQPSNGAQPAPVEKRETNPLKGVY*
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© 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.