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_10000034

Scaffold Ga0210407_10000034


Overview

Basic Information
Taxon OID3300020579 Open in IMG/M
Scaffold IDGa0210407_10000034 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)193097
Total Scaffold Genes172 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)145 (84.30%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

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?
F002848Metagenome / Metatranscriptome526Y
F016707Metagenome / Metatranscriptome245Y
F033122Metagenome / Metatranscriptome178Y
F060155Metagenome / Metatranscriptome133Y
F061567Metagenome / Metatranscriptome131Y

Sequences

Protein IDFamilyRBSSequence
Ga0210407_10000034104F061567GGAMSLRSVINRFFLPAFAVLCLVACVWAGRLEFQNTDQPISRLVRTAVALGSTQFAIADFDGDRQPDLALIRATSDGSPTSQYSVDFNFSGGHKPTICFVGPAGGMQISPRDVNGDKFADLVVTSLLDSKFVVIFLNDGKGNFVSAEPSDYPGALKGTGFRFVLPEDAPAGLLAFQVGRSMETEMGDATGWDAPYESSSVGMRLAPRQARSELALPSAGRAPPLV
Ga0210407_10000034157F016707AGGMSSKNGRRRRNDRRGGRGNRLVVLLWAALLSCSVALAIADRLKELQEHFDRDTHAGSKVKDLQKLGPAQFDAATQAGKAGDYGAVGVIFEKYRDNVRQAFELLRKQEPDADRHPGGYRQLELEVRQGIREVEDTLLVAPEDVRPPLEIVRKDLIDMDDALIRHLFPRRTKDPEKAPPAAEAKP
Ga0210407_1000003447F060155GAGGMKKMHHDSNAPGRRLGACVCLVALILLWAPAWASALQAAGVGCCDGAMCPLHGHAPKKSSSDANSTKDMPMAGCDQHRQKAAMDCSMACCHPKDPVVTGAVVFVLPSAVTTSVPLLIGASAPLLSASASSFVFDPASPPPRTDLLSL
Ga0210407_1000003481F002848GAGGMTKTLWILPCALLAIPVLAAGQTVQPKPVSKKSSTAPAKSTNTPAKPAQPSGKIAYAELTIGELIAEDANRWSDKMSAHAAVSGFITQVAKGNDGDTDVRICENPKIEGMDRTRCIVAKCISRLPCDLPPVGKPVTVKGITRYDAKVGTHWWEIHPVEEVEK
Ga0210407_1000003498F033122GGAGGMANLETQSLTQTGMVEVSGWDEDEVFFVERSQLGRDDYAGKHVTLTHMLSEGSIIFVRPIQLMAMHRANPIPYEVEFVGCNPEGNHQFRLNGVQPRHTRQNYTVN
 ⦗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.