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 Ga0318516_10073635

Scaffold Ga0318516_10073635


Overview

Basic Information
Taxon OID3300031543 Open in IMG/M
Scaffold IDGa0318516_10073635 Open in IMG/M
Source Dataset NameTropical soil microbial communities from Luquillo Experimental Forest, Puerto Rico - GRE.SIPMG.176b2f20
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1897
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (83.33%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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?
F031180Metagenome183N
F045914Metagenome152Y
F060216Metagenome133Y
F062393Metagenome / Metatranscriptome130Y

Sequences

Protein IDFamilyRBSSequence
Ga0318516_100736352F031180AGGAGMHTRHPAPEITEERLDWFTYDIEPDWTQICAIRPARRCNDGVVLDRRASQLLQVLLNEIAQDNTIPFSQARQAVLRALRRAHDQRHPRD
Ga0318516_100736353F060216AGGAGMTSEINSAHHRAATAFNDVASAARIAIEALAKIAAEPGRAIEIVENSFTEIEVVLRPSELAERLGSTPAGGNPS
Ga0318516_100736354F062393GGAGMDAEAYDRAWRIEQRAEELFKRDYPPGSFARRLPQFRPSYPDPVGEYYRQLAAKELSSQ
Ga0318516_100736355F045914AGGAGMAYVVIQQHKFGRMYLCGWSKRWGATVCANRFVAIKFRTEDEAELARDHAATRCPQFTDGRPIDWQVFELPPRQPRRDEEAE
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