NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0335074_10000657

Scaffold Ga0335074_10000657


Overview

Basic Information
Taxon OID3300032895 Open in IMG/M
Scaffold IDGa0335074_10000657 Open in IMG/M
Source Dataset NameSoil microbial communities from Loxahatchee National Wildlife Refuge, Florida, United States - Lox_Sample_2.3
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)48255
Total Scaffold Genes47 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)36 (76.60%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Actinomycetia(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
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000572Metagenome / Metatranscriptome1016Y
F042765Metagenome / Metatranscriptome157Y
F076757Metagenome / Metatranscriptome117Y
F079911Metagenome / Metatranscriptome115Y

Sequences

Protein IDFamilyRBSSequence
Ga0335074_1000065713F000572AGGVPVKITYYAVVADERTIDNPYGLVRRLEHDDGPSDEGLRKDLSWAPTPAIVEWERGDFGPELVEVSHEQASKIVEYFHHRWGSSGDH
Ga0335074_1000065724F000572AGCAGGVPGAITYYAVIADNRTIDNPYGLVRRLEHDDGPADEGMRRDFSWAFSPAIAEWEQGGRKQELVEVSHAQATKIIEFFRTQWGSYWEPLDP
Ga0335074_100006574F076757AGGAGMTAGPAPVAPPPHPLYALTTYELSRYRRELEHALTALPGHAPVRGQLQQRLAEVQAEQHSRAQLSTGGRA
Ga0335074_100006575F042765GAGMIRPPEPGGAAALAGFMAEYPCWSVFWDKAYGVWRAAEDDPDSALYIESRDLDTVLGYITAQA
Ga0335074_100006579F079911AGGAGMTGSSPLGNHENRIVNGAGIGENVRVISYNVPVGDRPAGIKVRFKIRIAAGKRAREIDARQAKAIMEVLQWQRQQQTRQ
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.