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 Ga0070734_10000027

Scaffold Ga0070734_10000027


Overview

Basic Information
Taxon OID3300005533 Open in IMG/M
Scaffold IDGa0070734_10000027 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
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)450202
Total Scaffold Genes441 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)347 (78.68%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (57.14%)
Associated Families7

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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000188Metagenome / Metatranscriptome1692Y
F000512Metagenome / Metatranscriptome1064Y
F000739Metagenome / Metatranscriptome913Y
F000885Metagenome / Metatranscriptome849Y
F002750Metagenome / Metatranscriptome533Y
F002853Metagenome / Metatranscriptome526Y
F007488Metagenome / Metatranscriptome350Y

Sequences

Protein IDFamilyRBSSequence
Ga0070734_10000027202F000188GGAGGMSVKPEMVFDVCWEVYRGAREVLETKRSISALKPEKAGKFLWRPDVKARLNEWVADFALAGQAALDEPGRASRMVMFRMYYLGLAPYDTARHFLGLSEMNWVNWSEEIRRRCGAEMLRRGMFPPRKYFGA*
Ga0070734_10000027212F000885GGAGGMSNPKLVFAGEIAQIAGVISAVAGVVLSLHHWPAAAALLGGGAAFYIGKKLRAQ*
Ga0070734_10000027214F002750GGAMEFLKRLLQSKYVGLLEGEVTRLRAENRALTNSLLGTAGFPPVDFPEAPKPQELPRTRRRSWHQIRAWREKEAARQSDAETVASDRS*
Ga0070734_10000027218F000512N/AMTNGGLSAFVLQLRTMTHCIQVVRETHETPENVAHRLELAGGCNRFGGPNYRAVWGWNRLAWIGGKFEDRDEHGSLIRERIELRREPKYPAVNRWHIERWVPPETYGSPRAWYAQTNEIANGRCVAALGPYPSGGEYEHCFTLETPKGEFIQLTPTVAEYIATAIERSRSKPRARSREKLFDREAREERAYENWAFDLLDDATPAFHKLPFVTVS*
Ga0070734_10000027219F000739N/AMNIARIELWLKGMLAAAISGAAGGVLTGFAAVGIDPTHFNLQAGIGATFRIGVAAALINSVIGVAAYLQKSPLPEA*
Ga0070734_10000027227F007488N/AMVLGFIRARALREILRFEIEMQIREYKPDDLDALKRIHEKQNFPYPFPDLQNPLFLTKIVLTDGEVNVAPGFTKVSSDRVLGAALLRLTAEAYLLLDPKAGTPKARWQSLLLLHEAARRNAWHRGLEDVHAWLPPAIARKFGRRITQLGWQRDDAWTPYCLRFGKQHDQI*
Ga0070734_10000027228F002853GAGGMGRGAQDQTRQLTDQQLASINALNQQFLGQQQQVGSLLLPQYQSILKNPGLSPADKAAVTNDSQGAIGSAFDSLQQSAANRAARTRNSAGFADLEDDLARQKGIAEGNQAQQNQLAFANTAFQRQLAALQGLSGLYGVDSNLLARGLGIPAELLNVRANSSRPSGFFSSLGSTLGGTLGALPEALL*
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