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 Ga0210407_10024164

Scaffold Ga0210407_10024164


Overview

Basic Information
Taxon OID3300020579 Open in IMG/M
Scaffold IDGa0210407_10024164 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-C-27-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4520
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (66.67%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Associated Families6

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Forest Soil Microbial Communities From Barre Woods Harvard Forest Lter Site, Petersham, Massachusetts, United States

Source Dataset Sampling Location
Location NameUSA: Massachusetts
CoordinatesLat. (o)42.481016Long. (o)-72.178343Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000512Metagenome / Metatranscriptome1064Y
F000696Metagenome / Metatranscriptome931Y
F000739Metagenome / Metatranscriptome913Y
F006480Metagenome / Metatranscriptome372Y
F043497Metagenome / Metatranscriptome156Y
F070523Metagenome / Metatranscriptome123Y

Sequences

Protein IDFamilyRBSSequence
Ga0210407_100241642F006480N/AMRRVFIGGIALLLCGGIYARSKSDPLMFVFLRVDHQQDVAILRPMIAPDIGVQLDSGPRELKPGTVLKCASTVREHDAIVETRIAKVTDLMLDCGEHKFVVKTVEFSPRAK
Ga0210407_100241643F000512N/AMIRILRETHETPDAVAHRLMRAGGINRSGEANYRAVWGWNRLAWIGGKFEDRDEHGALLRERVELRQEPKYPAVNRWHIERWLPPEAYGSPRAWYAQTIERENGISIPALGPYPSRGEYEHCFTLEGPRGEFLQLTPTIAEHIARAIEFSRKFTRAKTRSRLYEREQRTERKYDQWAFDVMDEGVPAFHKQPFVTVA
Ga0210407_100241644F000739GGTGGMKRFEIWLRGILAAAVSGGAGGVLTGFAAVGIDPQHFNLQSGSGATLRIAAAAALINAMIGVAAYLQKSPLPTE
Ga0210407_100241645F070523AGGMLLFPDERVAIHAKLGSVLKGGDPAEILLVIILLLALRPPSRRKAPKRKGGQSSKPKNT
Ga0210407_100241646F000696GAGGMPVVGSSAYNTAGQITSLVRSLLNDAQGNLFTDTVLLPYANSAYRKLQRAIGNAGGGGFIQDDALLVVTAVTQMDTSLQVSITDATAPPNQLPTDLLVPVKIWERPSGSTGDFLEMVDLTQHGGLPSRAQDVALSVWEWRADGLYFLGATQDTQIRLRYLKAYPDFTDAMSPVLVRNSQEAIAYATAALAGWARGSPLAEKWDDAAADAIEDLVSAAVRREQQSARRRRPFSARTGYTPF
Ga0210407_100241649F043497AGAAGGMIRSKRAMGFLWVALALLFHAWPMVPVAKGQGTRKDDIVFNSRGIPLAGATVRVCAMPASGQPCTPLALIYSDAALTQALANPTTTDGLGNYFFYAAPGKYEIEISGPAITTKQIPNVVLPNDPASPNFSAVSAFSLTLSGNLTVSGNTTVVGKM
 ⦗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.