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 Ga0308309_10041765

Scaffold Ga0308309_10041765


Overview

Basic Information
Taxon OID3300028906 Open in IMG/M
Scaffold IDGa0308309_10041765 Open in IMG/M
Source Dataset NameWarmed and freeze-thawed soil microbial communities from the Hubbard Brook experimental Forest, New Hampshire - Hubbard Brook CCASE Soil Metagenome WFT 5 (v2)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3242
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families3

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Loam → Forest Soil → Soil → Soil Microbial Communities From The Hubbard Brook Experimental Forest, New Hampshire, Under Manipulated Climate Change Conditions.

Source Dataset Sampling Location
Location NameUSA: New Hampshire, Hubbard Brook experimental Forest
CoordinatesLat. (o)Long. (o)Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F011170Metagenome / Metatranscriptome294Y
F066078Metagenome / Metatranscriptome127Y
F095908Metagenome / Metatranscriptome105Y

Sequences

Protein IDFamilyRBSSequence
Ga0308309_100417651F066078GAGGVREIVVLFVKLPEVPEMVTVTVPVVAVPLADSVKRLVFVAGFVPKTALTPLGKPDALKTTLPLNPFCGLIVIVVEPAEPWRKLKLAGDAESVKLGCDEVDGQLFTKLAALTVPMPVAKSHPVVVP
Ga0308309_100417652F011170N/AVLDRFPDEPVTVTVTVPVAAVLLAVSASLLVLAVLAGLNDAVTPLGRPDADKLTLLLKPFCGVTVMVLAPLAPRWIVKLVGDAERVKFP
Ga0308309_100417654F095908N/AMFGATETSNGPEVAPGGMVIVIDVALQRLIVTAAPFSRTALLPCVPPKPVPEITTWLPIEPVVAETAVITGAGAAAEFTDTLSNVAVATEDVVRLLTPSPT
Ga0308309_100417655F011170GGAGVVVFDKMPDVPVTVTVAVPIAAVLLAVSVNVLALAEPVGLNDAVTPLGRPDAVKLTLPLKPFCGLTEMVLAPLAPWAIVKLLGDAERM
 ⦗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.