NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0209060_10003427

Scaffold Ga0209060_10003427


Overview

Basic Information
Taxon OID3300027826 Open in IMG/M
Scaffold IDGa0209060_10003427 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen06_05102014_R1 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)13312
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (87.50%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000612Metagenome / Metatranscriptome985Y
F014776Metagenome / Metatranscriptome260Y
F026728Metagenome / Metatranscriptome197Y
F031990Metagenome / Metatranscriptome181Y
F099764Metagenome / Metatranscriptome103Y

Sequences

Protein IDFamilyRBSSequence
Ga0209060_100034272F026728GAGMTHRRSALRATIVTTMNSLLIKCFRCAVLAMMLLLSGLASMVCFSYDADGDESTPPVTIEFNGVVPSKKSIQIPKPHSTAAAQHVSNEQPASIELLVASNDSSSTPLRDKESPQLLVPLR
Ga0209060_100034274F099764GGAGMGRAKRNRQLSSKELMQLTIWGGLLFMILLGLVYGLVRAGAVIPVGSGVERHAATASHGNTADSHP
Ga0209060_100034275F031990N/AMSTIKRYLRWAVLGLIFVLTASVNLFCVVIDNDDDGDPTTGLTIEFTAVQGKRIQIASPVHLKSTLALKVFRARFFHKQRVERSNELNTNSSFSNLIDLLGPPLRC
Ga0209060_100034276F000612AGGVTPVPDTGLTFTADNKIATLQMTNVPIIDQPRWPAMDAETTPAFMDFKLVFKATDQPVKYEDAARQYRFEGFKATAQLEAAFRVPSIDFSFKTDPLETSSCDFAVMGSGVNGKYYEAVKS
Ga0209060_100034277F014776GGAGGMKVTLNPECAVRKLSDCEDGNDQGPGLKLDRRHLIKMGAASVFATLLPIRPLQAQSEPQSCAPAIPQNHAPSNGGSCPYPIPWLDKNGNHNQSPMPNVELSNIYHFKGKLARCNGFHGMGTDNKGNRLAWGNPTTDYSYMAGEYWAARQTHQAIFAHT
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