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 Ga0070733_10000048

Scaffold Ga0070733_10000048


Overview

Basic Information
Taxon OID3300005541 Open in IMG/M
Scaffold IDGa0070733_10000048 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen05_05102014_R1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)123532
Total Scaffold Genes119 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)92 (77.31%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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?
F000042Metagenome / Metatranscriptome3762Y
F008143Metagenome / Metatranscriptome338Y
F019446Metagenome / Metatranscriptome229Y
F020136Metagenome / Metatranscriptome225Y

Sequences

Protein IDFamilyRBSSequence
Ga0070733_10000048110F008143GAGGMKSVSGIHRTRLAASKVHRHLVKEARRTVQKLGWQVPEHGISPTLVGAIPLPFPVPDSFEAAFGYRGNLRFVQFGYVAGSRQFGYSDGGDDLPSDASLWSWFLHHPVIAPHLPETLYPTLYGTFPSGSERPSLEQIMRRGADLPTCHCLLLDTRDRRAYVAERDQAMILFALMEPEEGDAHNVFVDGMLISSGSEDYKEPPPPWLLEQIRRFLDGQVVGSQGA*
Ga0070733_10000048111F019446GAGGVLGKERSPNWSRSRSNERQFDFRKYGTTVTDAENQFLENMPDEIKEVLRWHADSQSRGRASQTIADFAGRFLGGMYEDGAVLPTNLSASAPEVLALVLLQHRTSARSTAAWLNLGFALRRVALYRTQDAEETNRARLQSAIQVFGRAIQLDPDNTGKNIRAWTGMSFAYHMLAMYEKELECCGKALESDRSDPKLWLKYSFALKSAGRDDEALSTMNDAYDAYIRAGRPEELREVFADVQSATQRRCRERMAQ*
Ga0070733_1000004841F020136GAGGVKNIRAIALIFFAVATWLAHAQDRPTSLSEARAAIDANLKTPEGKDFDERLGKDFFEKHMGPLRQCRQSAGNDLDSFWILLKLDKDGAAREVLLYPTTKLGTCAHEALLKDRFLAPPRPGYWVSVYLKISH*
Ga0070733_1000004886F000042AGGAMKNIKFVVKVNRGGTRVPQYVQRVDPTPIQMTTNRKLALVMGKFTAEDAVKSLQNSRCIPELESVQVNASIRVV*
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