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 Ga0209234_1005218

Scaffold Ga0209234_1005218


Overview

Basic Information
Taxon OID3300026295 Open in IMG/M
Scaffold IDGa0209234_1005218 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from the Angelo Coastal Reserve, California, USA - Sample 08_20_2013_1_20cm (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4921
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (63.64%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Archaea(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Grasslands → Grasslands Soil → Grasslands Soil Microbial Communities From The Angelo Coastal Reserve, California, Usa

Source Dataset Sampling Location
Location NameAngelo Coastal Reserve, California, USA
CoordinatesLat. (o)39.718176Long. (o)-123.652732Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001912Metagenome / Metatranscriptome618Y
F012563Metagenome279Y
F016134Metagenome249Y
F018901Metagenome232Y
F039072Metagenome164N

Sequences

Protein IDFamilyRBSSequence
Ga0209234_10052183F012563GGAGGMFLGGFAGGFLERGLTHIGYGIYFTTSRLIGIDLGANGGGALGGGTFAGFIHGELMPKLSSEESAKTITDLERMKEFEIEKDQISRIELKKPGLLGTGHIVITPKEGKPEKITLRHRIAYDRLMTLTQAFSPELASSS
Ga0209234_10052185F039072GAGGLTKFMMSLRDENYRVLTGAAIDRGISVQELLRAVIIPDWVKETPRGIVADNWPSIRPRR
Ga0209234_10052187F016134GAGLHDRASEATQFLKSKVEGKVRAEGTQLQIEGAKTKQVKLLLHKFLHHQGLNHYRVLSQSGVLEVTPPEKHVLRPPEPGGSAPTAAQTTPYLFPQTPALTPEKKRKTKPKHKYE
Ga0209234_10052188F001912AGGCGGMGLSSWDEGSNSDQLTGLKLDRWLVGHRKILVVQWAKLPRYGREGAVEVQPFPAEKRLCVSEAQGLSGEAMKGEPDDDGNPQSR
Ga0209234_10052189F018901N/AMLKTKIVAFLGLALTLSSLLMGSRTLGFQRAVLSLQLGGLLLVLGGFFLLFDNHGIQDALGGLYDLEAAMN
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