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 3300025520

3300025520: Serpentinite rock and fluid subsurface biosphere microbial communities from McLaughlin Reserve, California, USA - CR12Aug_QV12A (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300025520 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0053062 | Gp0055517 | Ga0208243
Sample NameSerpentinite rock and fluid subsurface biosphere microbial communities from McLaughlin Reserve, California, USA - CR12Aug_QV12A (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size158234301
Sequencing Scaffolds13
Novel Protein Genes14
Associated Families4

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → Caudovirales1
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes1
Not Available4
All Organisms → cellular organisms → Bacteria4
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Phycisphaerae → unclassified Phycisphaerae → Phycisphaerae bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales1
All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Phycisphaerae → Phycisphaerales1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameSerpentinite Rock And Fluid Microbial Communities From Tablelands Ophiolite (Newfoundland), Coast Range Ophiolite (California) And Ligurian Springs (Italy)
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Deep Subsurface → Unclassified → Unclassified → Serpentinite Rock And Fluid → Serpentinite Rock And Fluid Microbial Communities From Tablelands Ophiolite (Newfoundland), Coast Range Ophiolite (California) And Ligurian Springs (Italy)

Alternative Ecosystem Assignments
Environment Ontology (ENVO)terrestrial biome → planetary subsurface zone → rock
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Subsurface (non-saline)

Location Information
LocationUSA: California, McLaughlin Reserve
CoordinatesLat. (o)38.8739528Long. (o)-122.4391613Alt. (m)N/ADepth (m)N/A
Location on Map
Zoom:    Powered by OpenStreetMap ©


Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006324Metagenome376Y
F009686Metagenome / Metatranscriptome314Y
F012659Metagenome / Metatranscriptome278Y
F069970Metagenome123Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0208243_1000040All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → Caudovirales172623Open in IMG/M
Ga0208243_1000461All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes22944Open in IMG/M
Ga0208243_1004273Not Available4151Open in IMG/M
Ga0208243_1005027All Organisms → cellular organisms → Bacteria3779Open in IMG/M
Ga0208243_1007137All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Phycisphaerae → unclassified Phycisphaerae → Phycisphaerae bacterium3032Open in IMG/M
Ga0208243_1007263All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales2995Open in IMG/M
Ga0208243_1007398All Organisms → cellular organisms → Bacteria2963Open in IMG/M
Ga0208243_1008758All Organisms → cellular organisms → Bacteria → PVC group → Planctomycetes → Phycisphaerae → Phycisphaerales2650Open in IMG/M
Ga0208243_1013786All Organisms → cellular organisms → Bacteria1914Open in IMG/M
Ga0208243_1014405Not Available1849Open in IMG/M
Ga0208243_1021490Not Available1323Open in IMG/M
Ga0208243_1026697Not Available1089Open in IMG/M
Ga0208243_1031464All Organisms → cellular organisms → Bacteria940Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0208243_1000040Ga0208243_100004047F009686MNERQMFERSFQRPSNYFKLPASVQWDIDKSLGILDWMGEGLSDEDMKRFNDHYKSSES
Ga0208243_1000461Ga0208243_100046111F069970MTNTIQIGSKVTFDNDKIELFKSETSSADKEVQQYQKIVLGGINQVGIVKELGFALTTVAYPDGWEVPVPTKYLVVLPSEE
Ga0208243_1004273Ga0208243_10042734F006324AADFAVGGPTCATCGTSDFNGDGDFGTDADIEAFFACLAGNCCPSCFEGGSDFNADGDFGTDADIESFFRVLGGGAC
Ga0208243_1005027Ga0208243_10050277F006324ACGTSDFNGDGDFGTDQDIEAFFACLAGNCCPTCFPGGSDFNGDGDFGTDADIESFFRVLGGGNC
Ga0208243_1007137Ga0208243_10071371F006324SDFNGDGDFGTDQDIEAFFACLAGVCCPTCFPGGSDFNGDGDFGTDQDIEAFFRVLAGGT
Ga0208243_1007263Ga0208243_10072633F012659MGDTDMALLATMQEIRNWVRAAAYPGVRKLLEEALPEAKLRAAYQMLDGTVSLDQVRVACKMSPNVVGALAQRCIAMGLMELTEDKRRVRLFDLNDFGLLGAGDEGQERATNGRQAKQK
Ga0208243_1007398Ga0208243_10073981F006324PACGTSDFNGDGDFGTDQDIEAFFACLAGNCCAACFEGGSDFNQDGDFGTDQDIESFFRVLGGGPC
Ga0208243_1008758Ga0208243_10087584F006324AFFACLAGNCCATCFGSDFNNDGDFGTDQDIEAFFRVLAGQPC
Ga0208243_1012326Ga0208243_10123264F006324PPIIALRMVAAPPSGCGTSDFNGDGDFGTDQDIEAFFACLAGSCCATCFEGGSDFNGDGDFGTDQDIESFFRVLGGGDC
Ga0208243_1013786Ga0208243_10137861F006324ACLGGNCCAACFCQGSDFNGDGDFGTDQDIEAFFRVLGGGNC
Ga0208243_1014405Ga0208243_10144051F006324LLFTVETGNPCPGNGCGSSDFNGDGDFGTDGDIEAFFSCLGGTCCATCFCQGSDFNGDGDFGTDQDIESFFRVLAGGQC
Ga0208243_1021490Ga0208243_10214901F006324ADIESFFACLGGSCPPQPCPSSSDFNADGDFGTDADIEAFFRVLAGGEC
Ga0208243_1026697Ga0208243_10266971F006324AVQLGYSSVYQWTPANSDFNGDGDFGTDADIEAFFACLAGNCCPACFPGGADFNSDGDTGTDADIESFFRVLAGGNC
Ga0208243_1031464Ga0208243_10314642F006324ITSTLLTTVRTCGSSDYNGDGDFGTDQDIEAFFACLGGQCCQNCWSGGSDFNGDGDSGTDQDIEAFFRVLSGSGC
 ⦗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.