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 Ga0182024_10004216

Scaffold Ga0182024_10004216


Overview

Basic Information
Taxon OID3300014501 Open in IMG/M
Scaffold IDGa0182024_10004216 Open in IMG/M
Source Dataset NamePermafrost microbial communities from Stordalen Mire, Sweden - P3-2 metaG (Illumina Assembly)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)33368
Total Scaffold Genes29 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)21 (72.41%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Wetlands → Permafrost → Permafrost → Permafrost Microbial Communities From Stordalen Mire, Sweden

Source Dataset Sampling Location
Location NameSweden: Stordalen
CoordinatesLat. (o)68.35Long. (o)19.05Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000451Metagenome / Metatranscriptome1124Y
F002261Metagenome / Metatranscriptome577Y
F003186Metagenome / Metatranscriptome502N
F007294Metagenome / Metatranscriptome353Y
F010139Metagenome / Metatranscriptome308Y

Sequences

Protein IDFamilyRBSSequence
Ga0182024_1000421610F002261N/AMSSWSALDMAANAVMQETFGEPVVYQAVEAGAQVGAPLTITAVRHARMPEESGAMAGFEEISVNPSDFTNPPSKGDWVTAWGAQYVVTALRQPDAYGMIALTLLQRS*
Ga0182024_1000421616F007294GGAGMALTLQQLQANLDAVNQALGNPTLKVRFPDGRVVTYRSVDDLRKAKAEIEEDIRQTSGQTGSRVTLAQHKRGDGPTGPTLDDRW*
Ga0182024_100042162F000451N/AMARFQTVIKSARFVYSPYTATEMQGFAQALADSIRARIQSGQNIYDQSAAPLKPGQSGRRGYPDYKSARGLKPIRDWTWSGHTLRCLKVLTANENRAAIGFLDEALPGRRQTASQIAAFNNRREAQWGVSPHDRQAVLAAFQARPFVMLKAA*
Ga0182024_100042168F010139GAGGMQTVHMRSPEGEVREVEATTEQLTILMVAGWHQVPAPEPIAQNPVAPAEEEK*
Ga0182024_100042169F003186N/AVINPTTILGEWVTALQSCPDLVAGIGGDPAGIRAFLEGLATDNNLRLAILQMQPGSILVAWNGTTPRRLTGGALHFAHRFSIYLRAPEQNATATYADLFWLVVSAVPAGAPSWSSLLHFQIDHDCYPMDLDLPSAQRNTVVVSADGATLDYFEVQATLVEQGNPGGE*
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