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_10012359

Scaffold Ga0318541_10012359


Overview

Basic Information
Taxon OID3300031545 Open in IMG/M
Scaffold IDGa0318541_10012359 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)3880
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (50.00%)
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 → Hyphomicrobiales → Bradyrhizobiaceae → Bradyrhizobium → Bradyrhizobium diazoefficiens(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?
F000966Metagenome / Metatranscriptome819Y
F001088Metagenome / Metatranscriptome782Y
F021696Metagenome217Y

Sequences

Protein IDFamilyRBSSequence
Ga0318541_100123593F000966AGGAGGMPSRKFVWDPEHWRLRAEEARTVGDQMTHEDARTIMRRIANDYDRLAKVAEEQLADQEKRATGD
Ga0318541_100123594F021696GGAMLEAGHEQPAEIDGFRLWLMGSAALIAMLTPGAAVAEPIIVIISSQHNLQYAGRACSSLLLNAEGIAECKFAGDGRQLGRKLENEVRSGMATNPRCQGVDVFRQNHPDYDGKINFNELADQMKQVHWTLFLEYNPGQTIHNWTLFPWTGGDVSGGEPVPGGMVEGEGTVSRIADQICIVVTKRGANIH
Ga0318541_100123596F001088N/AMTVSSPNVIEMKLDRLIDDMRLLRSQMIAFDMRLKGIEASLKPSEPSEQQPENKSRPWFAAAASATARTVLILFAVGAATGAALFYLGT
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