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 Ga0070741_10000081

Scaffold Ga0070741_10000081


Overview

Basic Information
Taxon OID3300005529 Open in IMG/M
Scaffold IDGa0070741_10000081 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen16_06102014_R1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)348416
Total Scaffold Genes345 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)247 (71.59%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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

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?
F008208Metagenome / Metatranscriptome337N
F023186Metagenome / Metatranscriptome211Y
F024167Metagenome207Y
F041134Metagenome160Y
F057279Metagenome / Metatranscriptome136Y

Sequences

Protein IDFamilyRBSSequence
Ga0070741_10000081178F024167AGAAGGMSLIELTVMYGHLEGAGKDFARDPTGYLSIDAGIFRRHGLEVSWQHVQGTEERYRRLEDGRAQLSLLVGRASLPHFLKTQSTRILGAAMNSCPYYLVAASNINRIADLSGKIVACREGPSRGAPISETFFDLAKLRVGTDLELRLPGGDQDAFNLLADGKVQAALLPRPFGFIAEERGFKRLSEWPEVVDDPLPITIETTTKLLAQRQKDFAAFLTAHGDGIRHFKTHRTEALAVLTRRFGQSAAMAQKTFDEYIVCMDETLKVDCPRFEKLLSQVAPEKAGAARQVAAEWIVGGGLKV*
Ga0070741_10000081253F023186GGAGGMRPDSRDESKVISLERTDFKAVRCDKCGAKMYPQSLLASHLVRHQSRQRWLDSEIKKLRHTFTHMRDIA*
Ga0070741_10000081256F057279GAGMPSYEVYVHCFDCGGEHPLLMKIYLEHGPDRKQSVAESFRAGPVPPQVLAIKGRSALCLKTGKKFRLENDEQVLLVPASLFQP*
Ga0070741_10000081294F008208GGAGGMSSGIFRFFGASVATMLLVGFVLAPTPAPAQGLQCASNPLIGTWRLNLQKSTITRNNGVIEPRIMIIAPFGENGITEVFINDRDPRLAGRWEMWSVQFDGKPYPTKGGDPRQMRWTRIDCNTFQHETLRQLYYNLPEGTVKEYIPEGRVSSGGRITVSADGKTLTNKHTGTLGSGSQTRYEDEILVFDRL*
Ga0070741_10000081343F041134N/AVALQLRAKGITRVRPLEGGIDAWLSDNFPVVTEAPVDKSVVL*
 ⦗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.