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 Ga0335079_10124681

Scaffold Ga0335079_10124681


Overview

Basic Information
Taxon OID3300032783 Open in IMG/M
Scaffold IDGa0335079_10124681 Open in IMG/M
Source Dataset NameSoil microbial communities from Loxahatchee National Wildlife Refuge, Florida, United States - Lox_Sample_3.3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2906
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (75.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria(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)26.5065Long. (o)-80.2537Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002261Metagenome / Metatranscriptome577Y
F003186Metagenome / Metatranscriptome502N
F010139Metagenome / Metatranscriptome308Y
F015314Metagenome / Metatranscriptome255N

Sequences

Protein IDFamilyRBSSequence
Ga0335079_101246811F015314N/ARVPPLFVLRPLQGFTSSDIGDEYPAPDATNKVQLTRARQLYEQRRIGTQAEADRALSRLPKQEPAKPGKEKRHGSQSGKNAR
Ga0335079_101246814F002261GAGGMPNWPTIEGIVDGVILKTFGEPVVYQPVQAGAAQGNPFTVTAIRHLRPRDESGATANFEEISVNPSDFTNPPSKGDWVTAWGTQFVVTTVRQPDAYGMLNLALLQRS
Ga0335079_101246816F003186GGAVINPKTILGEWVTALQSCPDLVTAIGGDANDIRAFMEGLATDNNLRLAILQMPPGSILVAWNGTTPRRLAGGALHFAHRFSLYLRAPEQDSTATYADLFWLLVSAKPTGAPSWESLLHLQIDPDCYPMDMDLPSAQRNTVVVSADGATLDYFEVQATLVEQNNPGGE
Ga0335079_101246817F010139AGGAGMDSVFMRSPEGEVKEVEATVEKLTPLMVAGWHQVPAPVVANQKPVVAAEEEKLHGEHQ
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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