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 Ga0247723_1001548

Scaffold Ga0247723_1001548


Overview

Basic Information
Taxon OID3300028025 Open in IMG/M
Scaffold IDGa0247723_1001548 Open in IMG/M
Source Dataset NameSubsurface sediment microbial communities from gas well in West Virginia, United States - MSEEL Well Study Marcellus 5H_FC
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)13360
Total Scaffold Genes40 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)13 (32.50%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (33.33%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Archaea → unclassified Archaea → archaeon(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Deep Subsurface → Unclassified → Unclassified → Deep Subsurface Sediment → Subsurface Microbial Communities From Deep Shales In Ohio And West Virginia, Usa

Source Dataset Sampling Location
Location NameUSA: West Virginia
CoordinatesLat. (o)39.6017Long. (o)-79.9761Alt. (m)Depth (m)2281
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004723Metagenome / Metatranscriptome426Y
F024743Metagenome / Metatranscriptome204N
F039506Metagenome / Metatranscriptome163N
F075864Metagenome / Metatranscriptome118N
F099173Metagenome / Metatranscriptome103N
F102571Metagenome / Metatranscriptome101N

Sequences

Protein IDFamilyRBSSequence
Ga0247723_100154812F075864N/AMTPDNLWREIPQEVKDAALLLGNYFKKQGIDNWALYDVSSRKSVDNLENQVKNLETWKNKQVNGFID
Ga0247723_100154830F099173GGAGGVKRVPDKCPFCESLIMIHGGNPLRSEGGEFATYECKTIQDVRLTNHWKRVNQSDGCRRLEIELLTKQRDAANKHIKRLEKAGDKMHNWLMSKNRIGCDMEIASEWTRAKKNKP
Ga0247723_100154837F039506N/AMKYVKLIAKPDTWFKAGTEVFDDDCFGKRYTLEAYNRWLKSGIILARGIRVCEHDYELKLGYELGEERQDGELCNINEFDMTIVDDEKDIPWPKILGEILKEAGIGITIDEETRKRNFEDGIKHIQG
Ga0247723_100154839F102571AGTAGMKNHKQLNVFEMSFDEFVQHEEKERRRKNLCDECRGSGTIAEAGIFSKYYKCEKCKGSGKNK
Ga0247723_10015487F004723N/AMKKGDKFIHTDIIGKKYELTYTGTRRIVKGCEFEFFVDDKGKICFFTDTEVKNMKKIEE
Ga0247723_10015489F024743N/AMNEVALSNLYSHASGAYNQAKDAQDLIIMMNVLHLRLEHNMAYHKIAKRCGIKVNKVKLILFNYQNEK
 ⦗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.