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 Ga0335076_10005660

Scaffold Ga0335076_10005660


Overview

Basic Information
Taxon OID3300032955 Open in IMG/M
Scaffold IDGa0335076_10005660 Open in IMG/M
Source Dataset NameSoil microbial communities from Loxahatchee National Wildlife Refuge, Florida, United States - Lox_Sample_2.5
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)12614
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (92.86%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Wetlands → Unclassified → Soil → Soil Microbial Communities From Loxahatchee National Wildlife Refuge, Florida, United States

Source Dataset Sampling Location
Location NameUSA: Florida
CoordinatesLat. (o)26.5059Long. (o)-80.2517Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001596Metagenome / Metatranscriptome666Y
F006278Metagenome / Metatranscriptome377Y
F010114Metagenome / Metatranscriptome308Y
F033229Metagenome / Metatranscriptome178Y
F038890Metagenome165Y

Sequences

Protein IDFamilyRBSSequence
Ga0335076_100056603F033229AGGAGMYSTTSLNGVPTIQRDGHNVLGVWNENWEFANEICNLLNSLEDDPHIFLTEHDRKWLKAMDRAFRKVQHA
Ga0335076_100056605F006278GAGGMFRAEIQWLASGPTLKLEGNLVADWAEQARRLVTKDVLPNDLIVDLTEVSYVDSVGEQLLKWLASVGAVFIAGSVYAFAICDRLHLPLRQNVAERRRRRHGSSREESSHKHHHPVKAS
Ga0335076_100056606F001596AGGCGGMGVAGRNPPISTTTQLRPLEAPKRKRRIMSWLHPTSPVGIRNHASPAEVIACFQDQRIVLSRLAFLITGDHITADQAVVQACEITLQGNSPFPDWLFEWAKTATIASAISHAAGAIRISEAVYMNRRCPHVEHLSQGNDEERAARLELILRADAQTLIAELDALCRAVLVLRVAIRSSILDCALRLNVSRAAALAANCHAMTWLEKVTGEVSGGK
Ga0335076_100056607F010114GAGGMIIELNDDDTRLLYTVLLEQAQEHLTYADNSEVARKLYRLAARFERRVGAALK
Ga0335076_100056609F038890GGAGGVFQITTETCRAFTFAEVLIMAAMNVENVRLGPEGRVRANGAAAQSKHDRHVVRTGDRKAPQL
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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