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 Ga0209062_1001036

Scaffold Ga0209062_1001036


Overview

Basic Information
Taxon OID3300027965 Open in IMG/M
Scaffold IDGa0209062_1001036 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen12_06102014_R2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)58207
Total Scaffold Genes62 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)52 (83.87%)
Novel Protein Genes8 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)7 (87.50%)
Associated Families8

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Surface Soil → Surface Soil Microbial Communities From Centralia Pennsylvania, Which Are Recovering From An Underground Coalmine Fire.

Source Dataset Sampling Location
Location NameUSA: Pennsylvania, Centralia
CoordinatesLat. (o)40.7999Long. (o)-76.3402Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001527Metagenome / Metatranscriptome678Y
F013999Metagenome / Metatranscriptome266Y
F017111Metagenome242Y
F018762Metagenome233Y
F050488Metagenome / Metatranscriptome145Y
F055628Metagenome / Metatranscriptome138Y
F085449Metagenome111N
F092401Metagenome / Metatranscriptome107Y

Sequences

Protein IDFamilyRBSSequence
Ga0209062_100103614F050488N/AVCGVAERSEGEGNRVVEDSWNTHIDYLEDEVKKIDERAGRLEVTIADLENEQKKHALRELVQHLRDAAKEHRKYLALVKRK
Ga0209062_100103615F092401AGGAMPFSGNCHSFDSSTLDSSTLKALNDVGMVYGLFKEDLPFRPDHYTCLFVGQTNNLRARLLEHYSNRSIAGVTHFFAETSATEQQQKLREKELIAEFNPSGNKN
Ga0209062_10010364F001527AGGAGMIVTSVDILGRHLKPLCSRDNRVMKYESGGSKANTGDRASYHCGVEGCSVRYSSTDGYYMLIGMPDHANPVAEPGVNTARCPIHGRWLYRRLNVDAGPGVGWSCGVEGCDYGHNANTKGDWVRS
Ga0209062_100103644F055628GGAGMLNKRLWLLLPILSLAIVSAAGCLSRSNVSGVWKGSIESTDKRGHKWQGPAELTLNQNGGAITGTLVFTPPQAGRVQVPITSGVVSKDSLTFSGQNNLPMASVEITFHGSVSGTTLSGTADMTSRSVILGPATETASLSLQKQ
Ga0209062_100103645F085449GGAMVSGAAPSSFRLNSVDRHGRQIDPSVLAAAETIFPKALDYGQSLLGDLAVIANTLEEVAANVSQRMARRDSSGEPEAIRNLPGYVFRAFVREVNRLKNKELAVLDAAVEGQTLAQRLADPARQLEMKVLVKECLARFDFTERDMCWRRLEGFTWDEIGPVHELSAHAAEVRFRNAVRAVKAKLVRSRKPLPPTAQTAQNEQLMPAMEADDDERKT
Ga0209062_100103653F013999AGGAGGMFRIVSRKRQIELRRFGRPIGSAVATLLLSSPAFAQFGGDRVTSFLSNALGYAQGLGIFGAGFLVIWAIANIARERPSGKQWAGAGGALLLSSVLQLLRTFAG
Ga0209062_100103656F018762AGGAMRQHSRKFVFLALTTALALIVPITAHAFIGTMPVIDWTAVVRIGRQIGISQETLNTLGLYVQQYNRVNAGVQEGIRLSRGRQLQGVLNQVVGSQFPQFQQLQRDFNGVLVDPSILRGDLELTYGATPSTDFPISRKKRIDAADATATLGLLEASRAEMVSQQEELDADDIESRAALSSPGGAAKLSAAANGAMLRSQAYDQRLLARLMRLQALNIARDNSLEKEQEQVRQAQLTTVSNMVGGMRLSYGIGDKVGQ
Ga0209062_100103658F017111AGGAGMTTIPLTLEETQKAKSELGDYTEFYSHLAMQTRRASRVALVACAVALISIVSAILAQLRPPILLRVQDGKVSSLDGSDVQVAQTAVQQQPDNAEKLSFVNTFLSRFVNIDPLTVKRDTTLALNQMTYTLRQQILAQLNQENFVDTVRQNNVTSTLAVKSAELVSGDPYTAIVFGRKRLTTLINGQENEKNLLVKYTIRLAPVARSAANGWAGLEIADYKEEVLQP

 ⦗Top⦘



© 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.