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 3300000705

3300000705: Tropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 55



Overview

Basic Information
IMG/M Taxon OID3300000705 Open in IMG/M
GOLD Reference
(Study | Sequencing Project | Analysis Project)		Gs0075432 | Gp0054815 | Ga0001978
Sample NameTropical forest soil microbial communities from Luquillo Experimental Forest, Puerto Rico - Sample 55
Sequencing StatusPermanent Draft
Sequencing CenterDOE Joint Genome Institute (JGI)
Published?N
Use PolicyOpen

Dataset Contents
Total Genome Size10918086
Sequencing Scaffolds16
Novel Protein Genes16
Associated Families16

Dataset Phylogeny
Taxonomy GroupsNumber of Scaffolds
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1
Not Available8
All Organisms → cellular organisms → Bacteria2
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j11
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei1
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium1

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?
F003565Metagenome / Metatranscriptome479Y
F007624Metagenome / Metatranscriptome348N
F010721Metagenome / Metatranscriptome300Y
F011271Metagenome292Y
F019273Metagenome230Y
F029309Metagenome188Y
F030583Metagenome / Metatranscriptome185Y
F034415Metagenome / Metatranscriptome175Y
F045461Metagenome152N
F057789Metagenome135N
F059482Metagenome / Metatranscriptome134Y
F063348Metagenome129N
F067238Metagenome / Metatranscriptome126Y
F075781Metagenome / Metatranscriptome118Y
F078037Metagenome116N
F091102Metagenome107N

Associated Scaffolds

ScaffoldTaxonomyLengthIMG/M Link
JGI12455J11871_100047All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium3263Open in IMG/M
JGI12455J11871_100380All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria1693Open in IMG/M
JGI12455J11871_100914Not Available1239Open in IMG/M
JGI12455J11871_100994All Organisms → cellular organisms → Bacteria1189Open in IMG/M
JGI12455J11871_101379Not Available1011Open in IMG/M
JGI12455J11871_101450Not Available980Open in IMG/M
JGI12455J11871_101592All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium928Open in IMG/M
JGI12455J11871_101955All Organisms → cellular organisms → Bacteria832Open in IMG/M
JGI12455J11871_102044All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → unclassified Bradyrhizobium → Bradyrhizobium sp. AC87j1806Open in IMG/M
JGI12455J11871_102082Not Available801Open in IMG/M
JGI12455J11871_102357Not Available747Open in IMG/M
JGI12455J11871_102386All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium erythrophlei742Open in IMG/M
JGI12455J11871_102485Not Available726Open in IMG/M
JGI12455J11871_102726Not Available688Open in IMG/M
JGI12455J11871_103296Not Available618Open in IMG/M
JGI12455J11871_104548All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium523Open in IMG/M

Sequences

Scaffold IDProtein IDFamilySequence
JGI12455J11871_100047JGI12455J11871_1000471F007624RLLFEPMQLREGSFHGPRPTCPKHPKQRVHRHGFYVRFENCDSQRRLRIERFVCPRCGRTLSVLPKNRLPYVAVNTTILESDFDARASGTDPPSCSEKERGCLGRAFERFADRVAPLCALLGQMIRGIKPSVSECWRALRQLDNLEGILLLLGTKFNTSLLADYRCLQPGF*
JGI12455J11871_100380JGI12455J11871_1003801F078037MDAKVSAVILVTAFTASAALAQGPSTEKLKADAQEVVKIISSDSAKAQAYCETIKLGDQMDQAEQNNDSDKAEGLSNKIDELNQKLGPEYLKLGQDLQDIDPNSPDGLELGRTLAALD
JGI12455J11871_100914JGI12455J11871_1009143F019273MIYRVRTNKKYPFKQMQPGETFKLNDEDVRSAQKMAWXXRTRCKRPIRIIIAKSDDGFHCHRID*
JGI12455J11871_100994JGI12455J11871_1009943F059482MTEHLDPIPDDLPTCQERLRAVLERLHDLERQLHDLERQLDETCATTEDLQRSYACLKEEYLALKRLFFGPRRERLPEAAGQLHLFHAD
JGI12455J11871_101379JGI12455J11871_1013792F029309MIHKVRINKKYPFKQMSPGETFKLNELDVRGAQKLAYYYRSLCKRPIQVVVTKQDDGYYXRRVA*
JGI12455J11871_101450JGI12455J11871_1014501F063348MTGFDQTVRLPDRQAVPSVNLKKAEIEDLAFRFRDEVKAEILQHRGSNAIGVVGSFVVNIEAHRARYAKKLEAIRAGADAATVFLADEVGREIDALATKEIKRVRDAGRVEFEPGAADHQIPLEIHKIGLSDNQLEVIMRTAEPLAEEKCQEFLQRVAAILPMRGQISDDDVSVAVHRALSDIIRNSAVWKEWNQNSPPTLQDGQVSDAA*
JGI12455J11871_101592JGI12455J11871_1015922F091102MKQWKLLPLICGAWVVAWYPSWAIEERFLEIPGPHDSIVTFDLDTVQIIQPGRFTVVSTEIDNPKVMQFRLNVLEHLRTHCAHAEGKYPAPPELFTLGRPDIAVGDIEVAHVSGSKFVRWFYPYRLLSPTLENYEILFCDGESNYFEMRTLIANGSRHKDVYDCRRGLYGMMHDENDPTSALLIVVPEGSYLFDYYVAVCRALTHEEPYLPQKH*
JGI12455J11871_101955JGI12455J11871_1019551F010721LMSQRRRRVYIDTPKGRLSAGFTVPGTADAADVAMQLRERGWAPYKLRLDLEQHAWIAVVIDWKRAA*
JGI12455J11871_102044JGI12455J11871_1020442F057789MSETALQFTGTDLRGLLDVLLEALKVIRRXGRRPTITVNGKLYASHDLRKVAALLPDEDLQRHHQALVNVMFAKKQRGYRKTAYNLADRVNSWRTEEQKLAXRQAAKMSALAVAEPAPFRNRGFSERTIKALLDCSIDQPERLLFMQSADLKKIPGVGKASFDEIMRYRAKFIRSSVMKKNP*
JGI12455J11871_102082JGI12455J11871_1020821F075781PVGQVRPTEERFLLRVDGQTKRSFSSKEAAATAGAAVKKAYPIVMATIVDTEDGTSEDIKP*
JGI12455J11871_102357JGI12455J11871_1023571F045461LSGRFSNELIAHEEEIAVRQPTALHREFSLRSMLFGAVFVIMLAAAIIVDLAALLQLSGLISGLPLNILEIGGILTALTIFPLLVMGMSISVDLNHRK*
JGI12455J11871_102386JGI12455J11871_1023861F003565MAVRPEGANHQWRKNPPGELSIDPVADERLVRVTAWVGAS*
JGI12455J11871_102485JGI12455J11871_1024851F011271MRRNRTRSVGRRSRIDFQLEPKERQALKLAEIREALVAAGYNTTAKQAAVLGIGRSTAWWLLNHNKRAGPSAKVIKRILLSPQIPKRVRRKVEQYVEEKVRGVYGHSEQRTQWFSEQFQRSP
JGI12455J11871_102726JGI12455J11871_1027262F030583RGEVTNRAVLGRKRHGRPEHPIYQMLSGGDDLGGSKLGGLKIIK*
JGI12455J11871_103296JGI12455J11871_1032962F034415MPAAPGHARSLHLIEAEAYRRIMAGEAPATLDEFAQQLLHWLRQSYPEAAPTTLATVENQIRETWHRRHDMIQGGGL*
JGI12455J11871_104548JGI12455J11871_1045481F067238RKPLSSKAMVVNVAETWDMISAGMVERGERKQTAAEASKAD*
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