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 Ga0070732_10001942

Scaffold Ga0070732_10001942


Overview

Basic Information
Taxon OID3300005542 Open in IMG/M
Scaffold IDGa0070732_10001942 Open in IMG/M
Source Dataset NameSurface soil microbial communities from Centralia Pennsylvania, which are recovering from an underground coalmine fire - Coalmine Soil_Cen04_05102014_R1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)11271
Total Scaffold Genes17 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (47.06%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Archaea(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?
F000611Metagenome / Metatranscriptome987Y
F008873Metagenome / Metatranscriptome326Y
F032969Metagenome178Y
F039075Metagenome164Y
F081123Metagenome / Metatranscriptome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0070732_1000194210F000611AGGMYYYTVTKMQTNTNFPTYVFATVNQGRRTNVVEELKRNNQIDLIAPVTGRYDLVLRLKPNTPHNVYNTVKEIRNISDVRTTDTHTGFDGIQPTKKLESQMALGVSVLTCEHNTSEQIIKQLSNIPGFIEASTVPGQFDIVALWQARTSEDIMKTSVERITNLPGLFHSETLLAYAPVFKA
Ga0070732_1000194212F039075GAGGMFAPGIISLAFYKRKPSRLQIILGLVTTIVLSALLGFISPSGPIGQLGSVILAVVGGVILYVAILAILLYWYQPRHANPPMPTSG*
Ga0070732_100019422F032969AGGMPRNPRNSYANRHEAESNATWRPDTRLVRSTPPQFFVCPRCSEISFRVAFNERDVTGICAKCDLRLRTDRRIGRETREYYSEFNRQFGRGGRERIQRIFLKMNSVSAAKRVYPIVRRLGYRTKQSSPMLHARLVMVETTRDQALVLVDKLRERSIQVAIQGDVNLSDPKPSSPAGLVRKGDA*
Ga0070732_100019426F008873N/AMSEKKKEDEKRPAKLAPFVEPQLFVAVEEANRRLREIMKVTDPTTGLYKSIQRITEVSDMMLKRQDQLTKLYEPSENVRRYLDRIKQLVEQLTRTKMTELPVVSRTIIPQLEGEISGYVETFERALAEKEKEIRALKAELEVLKSKTKN*
Ga0070732_100019427F081123N/AMINSEKLLKDLNLRLARFGDSDIASQKSLLPPAIPSSDARLYYRNIAAKLVFKIE*
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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