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 3300000221

3300000221: Marine microbial communities from expanding oxygen minimum zones in Line P, North Pacific Ocean - June 2008 P12 2000m



Overview

Basic Information
IMG/M Taxon OID3300000221 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0046785 | Gp0054009 | Ga0026465
Sample NameMarine microbial communities from expanding oxygen minimum zones in Line P, North Pacific Ocean - June 2008 P12 2000m
Sequencing StatusDraft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?Y
Use PolicyOpen

Dataset Contents
Total Genome Size40682411
Sequencing Scaffolds10
Novel Protein Genes12
Associated Families10

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota1
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus → Nitrosopumilus maritimus3
All Organisms → cellular organisms → Bacteria → Proteobacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales1
All Organisms → cellular organisms → Archaea1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Deltaproteobacteria incertae sedis → SAR324 cluster → SAR324 cluster bacterium1
Not Available2

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameMarine Microbial Communities From Expanding Oxygen Minimum Zones In The Northeastern Subarctic Pacific Ocean
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Marine → Oceanic → Aphotic Zone → Marine → Marine Microbial Communities From Expanding Oxygen Minimum Zones In The Northeastern Subarctic Pacific Ocean

Alternative Ecosystem Assignments
Environment Ontology (ENVO)marine biome → marine aphotic zone → sea water
Earth Microbiome Project Ontology (EMPO)Free-living → Saline → Water (saline)

Location Information
LocationP12, Pacific Ocean
CoordinatesLat. (o)48.97Long. (o)-130.666667Alt. (m)N/ADepth (m)2000
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006552Metagenome370Y
F012125Metagenome283Y
F020717Metagenome / Metatranscriptome222Y
F027203Metagenome195Y
F031535Metagenome182N
F037770Metagenome167Y
F038276Metagenome166N
F066858Metagenome / Metatranscriptome126N
F081452Metagenome / Metatranscriptome114N
F099440Metagenome / Metatranscriptome103N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
LPjun08P122000mDRAFT_1001497All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota2402Open in IMG/M
LPjun08P122000mDRAFT_1001501All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus → Nitrosopumilus maritimus2399Open in IMG/M
LPjun08P122000mDRAFT_1002727All Organisms → cellular organisms → Bacteria → Proteobacteria1740Open in IMG/M
LPjun08P122000mDRAFT_1004106All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodobacterales1337Open in IMG/M
LPjun08P122000mDRAFT_1005143All Organisms → cellular organisms → Archaea1158Open in IMG/M
LPjun08P122000mDRAFT_1005261All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus → Nitrosopumilus maritimus1142Open in IMG/M
LPjun08P122000mDRAFT_1005474All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria → Deltaproteobacteria incertae sedis → SAR324 cluster → SAR324 cluster bacterium1111Open in IMG/M
LPjun08P122000mDRAFT_1007215All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → Nitrosopumilus → Nitrosopumilus maritimus926Open in IMG/M
LPjun08P122000mDRAFT_1008869Not Available811Open in IMG/M
LPjun08P122000mDRAFT_1009154Not Available795Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
LPjun08P122000mDRAFT_1001497LPjun08P122000mDRAFT_10014972F038276MNLDFLLRLTNYVNIDIEIYLAITKQFLTVLVIINHACVLLHDNHNYKDVFYDRLGNRYIRNACDFHNLHISYNNLGLVLEKFLLYIKIINNKV*
LPjun08P122000mDRAFT_1001501LPjun08P122000mDRAFT_10015017F012125MLDMCYNVMKPDSGRKSFFSAGKPKNLPAFYFLVVAGIILMVLLFKWFV*
LPjun08P122000mDRAFT_1001762LPjun08P122000mDRAFT_10017624F066858DADDKRTSANKILKISGERSEDMNAPSTVPGTAINPSFQPRESSMRFCLAYTAVDATELLNTANKLLLTASVGENPTNVNTGTIIIPPPRPIIEPNRPATNPSGMSQILSINVLG*
LPjun08P122000mDRAFT_1001823LPjun08P122000mDRAFT_10018233F027203PAWYRRSKTSSDIPKMPEARIVGLSSVSVPIEVESVGFTLNIFSPFSYNS*
LPjun08P122000mDRAFT_1002727LPjun08P122000mDRAFT_10027272F020717MTRKQSEIFDISIVACTRFLALLETTQCWDFLRPHHILHENKDIRCFRDLNEQKDISISVLKLMLSEN*
LPjun08P122000mDRAFT_1004106LPjun08P122000mDRAFT_10041063F081452LSLALVAREDGVISDASRIFKDPTNFNIIISDKVA*
LPjun08P122000mDRAFT_1005143LPjun08P122000mDRAFT_10051432F038276LFMNLDFLLRLTNYVNICKQIYLAVIKQFLTVLVIINHACVLLHGNHNYKDVFYDRLSNQYIRNACDFHNLHISCNNLGLVLEKFLLDVKIINNKV*
LPjun08P122000mDRAFT_1005261LPjun08P122000mDRAFT_10052611F006552MNQYPTVWEATPNVEIPLLISPVLKIKSSRINPVANIPKPIPIAKKAIDNLNNVGLAVFLNPIYEIVPITRPTKSPTRLRIISKKNSNYADSVTVLNKV*
LPjun08P122000mDRAFT_1005474LPjun08P122000mDRAFT_10054742F099440VQLIKLKNQVLNGVNLIDENGRKIMVCGLHNNGQEKYIENFSQWTCNLLASCIIYVD*
LPjun08P122000mDRAFT_1007215LPjun08P122000mDRAFT_10072151F031535SIDKPSPKATTDNIIARGPKNTRAYVAIASANQLRGLTNEVNHFQVPFKTFEFYTVNIE*
LPjun08P122000mDRAFT_1008869LPjun08P122000mDRAFT_10088691F031535AYVAIASANQLRGLTNEVNHFQVPFKTFEFYPANIE*
LPjun08P122000mDRAFT_1009154LPjun08P122000mDRAFT_10091543F037770LAFNADTIVDLPEPGMPVKQTISFTKMKLLTNSSL*
 ⦗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.