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 3300011976

3300011976: Human subgingival plaque microbial communities from Los Angeles, CA, USA - S13-02-D



Overview

Basic Information
IMG/M Taxon OID3300011976 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0113963 | Gp0134628 | Ga0119798
Sample NameHuman subgingival plaque microbial communities from Los Angeles, CA, USA - S13-02-D
Sequencing StatusPermanent Draft
Sequencing CenterUniversity of California, Los Angeles
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size176269073
Sequencing Scaffolds8
Novel Protein Genes11
Associated Families8

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria2
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → unclassified Porphyromonas → Porphyromonas sp. oral taxon 2781
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales1
Not Available1
All Organisms → Viruses → Predicted Viral1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → unclassified Porphyromonas → Porphyromonas sp. oral taxon 2751
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Saccharibacteria1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameHuman Oral Microbial Communities From Los Angeles, Ca, Usa
TypeHost-Associated
TaxonomyHost-Associated → Human → Digestive System → Oral Cavity → Subgingival Plaque → Human Subgingival Plaque → Human Oral Microbial Communities From Los Angeles, Ca, Usa

Alternative Ecosystem Assignments
Environment Ontology (ENVO)Unclassified
Earth Microbiome Project Ontology (EMPO)Host-associated → Animal → Animal secretion

Location Information
LocationUSA: Los Angeles
CoordinatesLat. (o)34.0722Long. (o)-118.4441Alt. (m)N/ADepth (m)N/A
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F022002Metagenome216Y
F051211Metagenome144N
F051213Metagenome144N
F066860Metagenome126N
F070224Metagenome123N
F077403Metagenome117N
F084362Metagenome112N
F095630Metagenome105N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0119798_1000215All Organisms → cellular organisms → Bacteria66629Open in IMG/M
Ga0119798_1000264All Organisms → cellular organisms → Bacteria56391Open in IMG/M
Ga0119798_1001453All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → unclassified Porphyromonas → Porphyromonas sp. oral taxon 27815147Open in IMG/M
Ga0119798_1001699All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales13379Open in IMG/M
Ga0119798_1004001Not Available6165Open in IMG/M
Ga0119798_1005234All Organisms → Viruses → Predicted Viral4735Open in IMG/M
Ga0119798_1006937All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Bacteroidia → Bacteroidales → Porphyromonadaceae → Porphyromonas → unclassified Porphyromonas → Porphyromonas sp. oral taxon 2753609Open in IMG/M
Ga0119798_1031836All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Saccharibacteria849Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0119798_1000215Ga0119798_100021552F051211MKAKKAIRIFEKIRDLPYGTSGSDEVWSCYQKCVLLKQELQHIGITSQLLIGVFDWQDLPIPEHILNLRRQRHERHVILRVFINGSTYNIDPSIDIGLASTLPIAHWDGTSSTATMASLKHLHVYRPHSLHERILSRLRSKLFRGNPKEFYTAIDKWLADTRAHQSS*
Ga0119798_1000264Ga0119798_100026411F095630MRYSSLYKISKDNGLLAHVYEHLLAQYILKYLQDKGFFILSDIILTAKTYGDTCYMDVELYNPAVHNAYNEALQAFDKHTIPEKAVRRAVSECGIEMNRAVLELKQDELMSNLSRMQSSDWRQQSEMTYHKSYDKSSVNMLFCVPYLKYGKKSKKLFPEYVLEYSIDEEYINSPIDQALAAIIMQAVALNFLVAVRENYTVYDRGDQWSEASLSVGYRIFLGLVKEDKRIASQLKSEFAAYIQYLLKSPFCSNLQKALLRCSRNLEQVLLGRSTLNNILGGCVIGGRGWLEMADDARIKQMIAAIQLDVYDI*
Ga0119798_1001453Ga0119798_10014536F051213MNLYKILGALILALSCVFTSCDWVDNEPTIEGDRYKTFDSSAQRKSFRVVNASGKRYNHKVDWDIVGIKQLWVKTFLTKKVDTLSNGDLKISYDWVSFTVKERKSVIEVEVQKNETGQARSVFFATSNSRYQAHLPNMIITQWAK*
Ga0119798_1001699Ga0119798_100169910F022002MTNIYSFLSPSSVGREVVLAFGILLLALLLSLPSHAQDGRSKVPINRTISGFTLGVTTPAEARAIIQRQGGKIILEVGVHAGSKDASYIVSGLNYARRPTQTVAMFFYKGHLHSIDFIFDGWDVLEQIESELEDKYGKMIESEGMFKKKVIVDAFTSLEVVRTFEYEGHVRINHAYIAYTDEELERARSAEKESEN*
Ga0119798_1001699Ga0119798_10016998F022002MKNIYSPSFRSMSRRLALTLGLLLALLLSLPSHAQDGRSKVPINRTISGFTLGVTTPAEARAIIQRQGGKIEGTQAGSDEQAYAITGLKYARCSTLMAGLYFYKGHLRRISFTFDDLDVLEQIESDLEDKYETMAEGKETSKMKSKVIFDAFTALEVVRNFEYEGHSMFKNAYIAYTDLELERARSAEKESEI*
Ga0119798_1001699Ga0119798_10016999F022002MSSRLALTLGLLLALLLSLPSYAQDGQSKEPINRTISGFTLGVTTPAEARAIIQRQGGEIEETQAWSDEVVYAITGLKYARRPTLSVRLYFYKGHLRSISFTFGDLKIFEQIESGLENKYGTMAEGKATSKMRVKGIADAFTSLEVVVHSFEDDGHVGFAYAYISYTDLELDRAYSAENENEI*
Ga0119798_1004001Ga0119798_10040016F084362MNCTFTVRWSDDKNKPHAKTYATEADAKRAKKWLLEHGVRSIDIAVKINNKPAGSLQDSEKRPEVAAEQKGFWWEK*
Ga0119798_1005234Ga0119798_10052343F077403MNTIMLLLRRLVLIILLLPSMCTVYAEDRISVHFEVRWHREHNPMDTLRRELDVPYLHVVYQNHTDTAYYLVRQDQSNWIFPRLRYYTVIEDGSRPEKYNLTYYVPRWATYPLKGAGRSVRERRHYTHHVLLRDQAWEVELEPSIVDGQPKPRIAYGEGMDNWSECAYYLQGYLYYLMTPQLDHDWYQVTYLSEHMEYSVGMEMVETEGTLKPFVHRLAFVPAHSRREYVYSLLAFAVIHGRWQFLLPDWEASGRLRDECIPLNVYQLRGKGSTASAPSGYPLPEHYEGYQLYRGWVRGDSISIKM*
Ga0119798_1006937Ga0119798_10069371F070224MKRLLFLLLTLFHCTAWSQVYNAPDSLYVASGAVYIPPVSGEPIYLLASPLKSGHTPGSKIRTRDWVKVDYSDENNIITIGFGDSLVIENRFIYQADCYPKAKEYKLYHKGTGVEITKEDFDSIKFTRMPTALREIKKYKLPRTRRSSGEVDRWQHPHLFVVEHNKKADRYYKYRIALVIYMDYDHPEACIIH*
Ga0119798_1006937Ga0119798_10069372F070224MKRLLFLLLTLLHCTAWSQGYNAPDSIYVASGAVYIPPISGEPIYLLASPLKSGHTPGSKIRTRDWVKVDFSDQNNLHIMGFGDSLILENRFVYKADRYPNAKEYELYYKGTGEEITKEDFDSIKFSRMPTALREIKKHKLPRTRRFSGEVDRWQHPHLFVIEHNKKAGRYYKYRIALVIYMDYNHPEAKIIH*
Ga0119798_1031836Ga0119798_10318362F066860MTTKKQKLQKQQAIDTWIVIALWASAIWFSLARGFITGIGGWVLALLGPWALIVSCICLAIISRQVKKRHASKDYLTTIVRVSFIVMSISLFICGLAMPDFSDIETFSTLSVYTNNAISFETSKAIAIISGFVVVLSLFVAVTFGIAEDREETTEDIAI*
 ⦗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.