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 AF_2010_repII_A1DRAFT_10022380

Scaffold AF_2010_repII_A1DRAFT_10022380


Overview

Basic Information
Taxon OID3300000597 Open in IMG/M
Scaffold IDAF_2010_repII_A1DRAFT_10022380 Open in IMG/M
Source Dataset NameForest soil microbial communities from Amazon forest - 2010 replicate II A1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusDraft

Scaffold Components
Scaffold Length (bps)1729
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
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 → unclassified Alphaproteobacteria → Alphaproteobacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Forest Soil → Forest Soil Microbial Communities From Amazon Forest, Brazil

Source Dataset Sampling Location
Location NameAmazon forest, Fazenda Nova Vida, City of Ariquemes, State of Rondonia, Brazil
CoordinatesLat. (o)-10.171667Long. (o)-62.7875Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000037Metagenome / Metatranscriptome4230Y
F003372Metagenome / Metatranscriptome491Y
F004562Metagenome / Metatranscriptome433Y

Sequences

Protein IDFamilyRBSSequence
AF_2010_repII_A1DRAFT_100223802F000037AGCAGMDKDYLTLKRASASRSSGGWNDDDFDVLCDGVVVGRIMKVAAPPVGSPWMWTLAFGHHEDRTPTHGYAETREAAMAAFAKSWRRG*
AF_2010_repII_A1DRAFT_100223803F004562GGAGGMSTTVLAYVILLMGFITFLGGLFGALILIFEEVAKTGHVPFRYYAMMVGLISGGLGMIGIGQGLRLLLLILGKGVTVP*
AF_2010_repII_A1DRAFT_100223804F003372N/AMAITQGKSPFVFGMVVLATLLIAAPAAHAACRSPKNICKHFDDCLQRTSDPNNKDADGIRAGVKARNGQIVSAGAEACARDLGRKQQWDKWARGCSELEFVQIAKVGLELGKVHCDRYSQ
 ⦗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.