NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Sample 3300027057

3300027057: Marine sediment microbial community from Union City, CA, USA - Pond 1C Sediment 1 (SPAdes)



Overview

Basic Information
IMG/M Taxon OID3300027057 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0053056 | Gp0053695 | Ga0207796
Sample NameMarine sediment microbial community from Union City, CA, USA - Pond 1C Sediment 1 (SPAdes)
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size146770160
Sequencing Scaffolds13
Novel Protein Genes15
Associated Families13

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria5
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Anaerolineae → Anaerolineales → unclassified Anaerolineales → Anaerolineales bacterium1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Anaerolineae → Anaerolineales → Anaerolineaceae → unclassified Anaerolineaceae → Anaerolineaceae bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria2
Not Available2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Cellvibrionales → Porticoccaceae → unclassified Porticoccaceae → Porticoccaceae bacterium1
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi1

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameEnvironmental Microbial Communities From Fremont, Ca And La Paraguera, Puerto Rico
TypeEnvironmental
TaxonomyEnvironmental → Aquatic → Marine → Unclassified → Unclassified → Enviromental → Environmental Microbial Communities From Fremont, Ca And La Paraguera, Puerto Rico

Alternative Ecosystem Assignments
Environment Ontology (ENVO)marine biome → pond → sediment
Earth Microbiome Project Ontology (EMPO)Free-living → Saline → Water (saline)

Location Information
LocationEden Landing Ponds, San Francisco, CA, USA
CoordinatesLat. (o)37.569083Long. (o)-122.103267Alt. (m)N/ADepth (m).32
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F021885Metagenome / Metatranscriptome217Y
F029111Metagenome / Metatranscriptome189Y
F033789Metagenome / Metatranscriptome176Y
F037736Metagenome / Metatranscriptome167Y
F049303Metagenome / Metatranscriptome147Y
F052283Metagenome / Metatranscriptome143Y
F070128Metagenome / Metatranscriptome123Y
F080659Metagenome115Y
F085223Metagenome / Metatranscriptome111Y
F090093Metagenome108N
F092306Metagenome / Metatranscriptome107Y
F094909Metagenome105Y
F102576Metagenome101Y

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
Ga0207796_1000018All Organisms → cellular organisms → Bacteria75427Open in IMG/M
Ga0207796_1000305All Organisms → cellular organisms → Bacteria20299Open in IMG/M
Ga0207796_1000476All Organisms → cellular organisms → Bacteria16167Open in IMG/M
Ga0207796_1002534All Organisms → cellular organisms → Bacteria5108Open in IMG/M
Ga0207796_1002888All Organisms → cellular organisms → Bacteria4644Open in IMG/M
Ga0207796_1003826All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Anaerolineae → Anaerolineales → unclassified Anaerolineales → Anaerolineales bacterium3815Open in IMG/M
Ga0207796_1009807All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi → Anaerolineae → Anaerolineales → Anaerolineaceae → unclassified Anaerolineaceae → Anaerolineaceae bacterium1861Open in IMG/M
Ga0207796_1012451All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria1571Open in IMG/M
Ga0207796_1020174All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria1130Open in IMG/M
Ga0207796_1026162Not Available950Open in IMG/M
Ga0207796_1030534All Organisms → cellular organisms → Bacteria → Proteobacteria → Gammaproteobacteria → Cellvibrionales → Porticoccaceae → unclassified Porticoccaceae → Porticoccaceae bacterium859Open in IMG/M
Ga0207796_1047401Not Available647Open in IMG/M
Ga0207796_1053683All Organisms → cellular organisms → Bacteria → Terrabacteria group → Chloroflexi597Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
Ga0207796_1000018Ga0207796_100001850F102576MNDLLLLERYFPGGKLEGGIALANRLDWGLSVQMSGNDYVVSSGNEPILRTESKDALQSFIYGMGLAYAVLPENLFLALEKTLREL
Ga0207796_1000305Ga0207796_100030523F094909MVVMYNEKILDWVEGYVLTRMLIFGDFVGTVDRTELMFDLDTSSDYFRIHEGQRIQALSLPVKSRRLCTLLGEIEACFQRGWPLLDAGEWTKADFDEVYDLSMQISDEIMLLREEFQQKMPSEPRPSSVNPD
Ga0207796_1000476Ga0207796_10004763F052283MNSRQKSVFTGAILGAALGAVGGYLFTRGLDLSREGREQPDELSLKSVPPGEMVKVFIAIMAVLRGIAELGERL
Ga0207796_1002534Ga0207796_10025346F094909MVVMYNEKVLDWIEGYVLTRMLIFGDFVGTVNRTELMFDLDTGSDYFRIYEGQRIQALSLPVKSRNLCTLLGEIESFFQRGWPLLDAGEWTEADFNQVYELSKRISDEIMILRKEIQEKKNSVSATASVNPDPNP
Ga0207796_1002888Ga0207796_10028882F102576MNDLLMLERYFPGGKLEGGIELANRLDWGLSVQRAGDDFVVSSGNEPILRTGSKDALQSFIYGMGLAYAILPERLFKMLEKSLREL
Ga0207796_1003826Ga0207796_10038263F092306MTTIFYSGPDVQQSSEPHTFVEVQESDCWPVDDRSASGTKDQLADGLHPVIAIGGRTAADGRPFNLTGVVVSCNISTAGTATDRIVVNIADGTIVRNYVANILTYSGGSAATYETAPVMGQPVFVDDSADLAAGVTLSMSPLNSADVRNPLAGYLWYCQDEIADGQVGGSRSTATFDTALSDSLVEQTYCVLLINAARELA
Ga0207796_1009807Ga0207796_10098072F080659MTGIPILDTILDLIMQYRLGIAMVGLAVIAIGLIARPIAPEWSAHNRTAVAMMVIGGIVLILLPTLAAAIVGT
Ga0207796_1012451Ga0207796_10124512F070128MLLVGGFGSVSSGSLDATAIMALSLASSLILLDLAGTPQPRSPRAIIGFSLLAIAIGAALVMVFERVSS
Ga0207796_1020174Ga0207796_10201742F029111MAIGRETGLVWKCWIGSGGGGNRTAGNSPDSDDSRTVSRTGFDENTSKEHEQNALPDILMTMSQIPDVNRELAEVGTMFAVFDALRRSGER
Ga0207796_1026162Ga0207796_10261621F090093MNIRTIVVIACLYVSFFGLPNIELPNVQPPAPETPDVREPTAELRDAVQDVADICEKMDAFDRLVWMSTWEECSTIVAGEDDDVSLVFDNTLGLRLFTDSTFDVAWSRLANASQKYRGLGEAVEKAFTQVIGNDV
Ga0207796_1026162Ga0207796_10261622F049303MSTLINDPVRVLAVVAAAAVLLAPYLPAVLKRLKAAWASLPSVPKTPPDGIGVSDLTMVLDLANRLRLDGHEKATDLAKQLLDAMLEVPQK
Ga0207796_1026162Ga0207796_10261623F021885MNIFEKLKLLAEWSPLLTFAQQLAAEDDIHAKAVIVTEAMEWVADRTSVEWDDELASHISDILISEEGEAFVRWILERMQVSDVDVD
Ga0207796_1030534Ga0207796_10305342F033789MFEDLPCPFMIGDIKVWPAHSRPGQRWFIAYEGKPYWFRSKNEAKLFAMDRQAMEDPEGLCD
Ga0207796_1047401Ga0207796_10474011F037736VQLDGLQILWLLANPLWTHGIGESGSKTITGWLLMDAAAANHIWWLNTNPFTGLLLHINSYRIRHLPFGFLTASEFQSRSTCLIKK
Ga0207796_1053683Ga0207796_10536831F085223LAEYEKMIATEDGIQALIRRVEIADSLNWGHLADGHQPTCPRQLHFTHHDSYERWAKHFDGSQSLVTILRVRCLECGAVFTIQPSFIVRYKRYDTDAIEKYMVLLFITEDSYRMAGVSQALGMDTQQAGTWLALTEAERDPISPTALWALVQWLGELSPAQLNLALGVEPPTHVIEDEKHVKECGEKAYVPIVYAPRE
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