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 3300000682

3300000682: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 59



Overview

Basic Information
IMG/M Taxon OID3300000682 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0075432 | Gp0054835 | Ga0001982
Sample NameTropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 59
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size6023350
Sequencing Scaffolds11
Novel Protein Genes12
Associated Families11

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1
All Organisms → cellular organisms → Bacteria1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium1
Not Available5

Ecosystem and Geography

Ecosystem Assignment (GOLD)
NameTropical Forest Soil Microbial Communities From Luquillo Experimental Forest, Puerto Rico
TypeEnvironmental
TaxonomyEnvironmental → Terrestrial → Soil → Loam → Forest Soil → Tropical Forest Soil → Tropical Forest Soil Microbial Communities From Luquillo Experimental Forest, Puerto Rico

Alternative Ecosystem Assignments
Environment Ontology (ENVO)forest biome → tropical forest → forest soil
Earth Microbiome Project Ontology (EMPO)Free-living → Non-saline → Soil (non-saline)

Location Information
LocationLuquillo Experimental Forest Soil, Puerto Rico
CoordinatesLat. (o)18.0Long. (o)-65.0Alt. (m)N/ADepth (m).1
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000466Metagenome / Metatranscriptome1105Y
F003090Metagenome / Metatranscriptome508Y
F007495Metagenome / Metatranscriptome350Y
F007624Metagenome / Metatranscriptome348N
F012657Metagenome278Y
F031584Metagenome / Metatranscriptome182Y
F044096Metagenome / Metatranscriptome155Y
F058548Metagenome / Metatranscriptome135Y
F069634Metagenome123Y
F091102Metagenome107N
F091204Metagenome107N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
JGI12334J11920_100017All Organisms → cellular organisms → Bacteria → Terrabacteria group → Firmicutes2604Open in IMG/M
JGI12334J11920_100169All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1392Open in IMG/M
JGI12334J11920_100171All Organisms → cellular organisms → Bacteria1387Open in IMG/M
JGI12334J11920_100672All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium831Open in IMG/M
JGI12334J11920_100856All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium746Open in IMG/M
JGI12334J11920_100925Not Available717Open in IMG/M
JGI12334J11920_100942Not Available711Open in IMG/M
JGI12334J11920_101413Not Available602Open in IMG/M
JGI12334J11920_101626All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium571Open in IMG/M
JGI12334J11920_101671Not Available564Open in IMG/M
JGI12334J11920_102065Not Available520Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
JGI12334J11920_100017JGI12334J11920_1000171F007624GGAVSGRCRLLFEPMQLREGSFHGPRPTCPKHPKQRVHRHGFYVRFENCDSQRRLRIERFVCPRCGRTLSVLPKNRLPYVAVNTTILESDFDARASGTDPPSCSEKERGCLGRAFERFADRVAPLCALLGQMIRGIKPSVSECWRALRQLDNLEGILLLLGTKFNTSLLADYRCLQPGF*
JGI12334J11920_100169JGI12334J11920_1001693F058548IACQIAPKYDPLFAAKNDPFDGAETGGAEAHIAEQSRSWRAASGERAVMRGS*
JGI12334J11920_100171JGI12334J11920_1001712F031584LMSALGHVWTAPWQELSDASAALVGCGHVSGLLMRPM*
JGI12334J11920_100384JGI12334J11920_1003841F012657AFHDRFREKILLYREANILLVLMDRVNPSRDGRDPLFEPVFWEYERIVFWELPRIFGESFNPDRAARRQSVAVALRDLNVRMHPPIGNRYDFALSWSRNWFAGIGHNEINPATLARFSSFWSSEYTAVQKVLDAAVKTSRRLIDFTFIKRRILNLWSGG*
JGI12334J11920_100672JGI12334J11920_1006722F000466MAHLLTYMTTPEAWQRWKKLPSQGVVKRDWVPTGRIDFATRFYGNLEDSDQPSEFKLIVEERRIVESITGNENLEIQWRLATLNEAKVVVAQYHKYLSENSLIKSVFDEPASLPPPKRIQKIQE
JGI12334J11920_100856JGI12334J11920_1008562F044096VRSAILIFLAILVSATTPARAQGTWLETRMTRAICSSEATPVA
JGI12334J11920_100925JGI12334J11920_1009251F012657SLLWKSGHNRSFVNQKGRDLLVCSRDFETKAAASRIIAMAWLKIIEKKRLLSASPVMIAASLHQMAEKYDPQVAPTTLHLPEAVHADFREKVFLYREANVLLALVDRVNPSSDGRDSLFEPVFWEYERIIFRESSDHFGELSDHPILRAARRESVAAALQDLNFRMHPPRVNKWDFAVDWSRNWFAGIGHNELNPARLERFSEFWSREYTAVQQALDATVTTGR*
JGI12334J11920_100942JGI12334J11920_1009422F091204MSATVIEFPGARESGSKPVHDVQSAQVSNEVVAPLTDFEIAAIENLGTIFQAGGTEAFNFAAKRQLFILASLIKRILGEDGLSELLTAAEWV*
JGI12334J11920_101413JGI12334J11920_1014132F069634MKIGIHAPSKPAVVVSLLLAILALIGYFVDSSFAFLIAMFAYIIGALGVLVEI*
JGI12334J11920_101626JGI12334J11920_1016261F003090RNHCGSKCPLXKMTVIDYKGYRIEVXPVGKGWRASIFSPGSIRPWPNSPANLEKSSAEELVAEAKRIIDVRLGPRRL*
JGI12334J11920_101671JGI12334J11920_1016711F007495KKLAEATYELDAFKSNLTRTEADKRIAMLTAKLKLLDEPPHTI*
JGI12334J11920_102065JGI12334J11920_1020651F091102HLGENRMKQWKLLPLICGAWVVTWYPSWAIEKRFLEIPGPHDSIVTFDLDTVQIIQPGRFTVVSTEIDNPEVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVADIEVAHVSGSKFVRWFYPYLLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVYDCRRG
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