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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Scaffold Ga0318541_10003627

Scaffold Ga0318541_10003627


Overview

Basic Information
Taxon OID3300031545 Open in IMG/M
Scaffold IDGa0318541_10003627 Open in IMG/M
Source Dataset NameTropical soil microbial communities from Luquillo Experimental Forest, Puerto Rico - GRE.SIPMG.166b4f26
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6249
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (83.33%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Lab Enrichment Of Tropical Soil Microbial Communities From Luquillo Experimental Forest, Puerto Rico

Source Dataset Sampling Location
Location NamePuerto Rico: Rio Grande
CoordinatesLat. (o)18.321Long. (o)-65.8172Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005460Metagenome / Metatranscriptome400Y
F005673Metagenome / Metatranscriptome393Y
F035242Metagenome172Y

Sequences

Protein IDFamilyRBSSequence
Ga0318541_1000362710F005673N/AMHSDRVIADAIKAAQRLLWHRYDLPDAMKVVRLRKFVRSPTVQSALQLSSDTLVAFTLRAVELVIADESRTDRETIRRLWGILNNPHLIQAVGPLNSPLGPSWLSG
Ga0318541_100036272F005460AGGAVEAVVLPDGNYYLPASDEVIPADMASPSPDDRFHHCFYYPIAKVVDPWSGPVWESKPKTRCFFAPMNHS
Ga0318541_100036274F035242AGCAGVQQQLAKETKLIAALKQHYERYHADDLAALKELYEYHAENCVKAAELTEDTQQREEYLKLAREWTEAATTLQALTDRMMARRSNQAKPADDAPSLTSRPRRRRATRNPRK
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