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 Ga0210404_10000008

Scaffold Ga0210404_10000008


Overview

Basic Information
Taxon OID3300021088 Open in IMG/M
Scaffold IDGa0210404_10000008 Open in IMG/M
Source Dataset NameForest soil microbial communities from Barre Woods Harvard Forest LTER site, Petersham, Massachusetts, United States - Inc-BW-H-28-M
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)456942
Total Scaffold Genes395 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)298 (75.44%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Forest Soil Microbial Communities From Barre Woods Harvard Forest Lter Site, Petersham, Massachusetts, United States

Source Dataset Sampling Location
Location NameUSA: Massachusetts
CoordinatesLat. (o)42.481016Long. (o)-72.178343Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000036Metagenome / Metatranscriptome4352Y
F000228Metagenome / Metatranscriptome1519Y
F003988Metagenome / Metatranscriptome458Y
F005712Metagenome / Metatranscriptome392Y
F011690Metagenome / Metatranscriptome288Y

Sequences

Protein IDFamilyRBSSequence
Ga0210404_10000008269F003988N/AVKRLYTIARVKGGMKFTCSHCAHHVSTLDFDSRDGNLRTQAATAINRHATSVHHEPVMFSSLDTQQRIWRS
Ga0210404_10000008290F000228GAGMKSGDQSEESKGDARFQMFMVPCSCGTTFAVAKNYDHQGTAWSRYLICPNCGKRHDPKNRLLQVGYQREGYWKVDGC
Ga0210404_10000008309F000036GAGGMDYKEIFWMACDSTEQQRAEYGPFHTRVEAEAEARKLGFAYLLRYEHLLDKNEEIQEVRCIFIELPGALKAEAPSISLHTRCATCGASATHDKSWQAEVWADIHEFEHARHKVRLFEHARGQGLKEIGGWRG
Ga0210404_10000008385F011690N/AVPITDTSTAAQAVQLNIHRSMTGEQRLLLAYEMSMLARELNRARLPREHPAWTEASIARELLRLAFLQRHYPPVA
Ga0210404_1000000850F005712AGGAGMKSIRRFTYATVLFLSALNFAPSLAFAQDASGTFTLTHEVRWQKAVVPAGTYHFSMEARGPSELLVLNKISGRGAGFLVLVTDTEASQPSDTSRLVLVSRPEGSFVSAMELPEFGVTLHFAVPASTREVARAATVATTTASATR
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