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 Ga0150985_111955240

Scaffold Ga0150985_111955240


Overview

Basic Information
Taxon OID3300012212 Open in IMG/M
Scaffold IDGa0150985_111955240 Open in IMG/M
Source Dataset NameCombined assembly of Hopland grassland soil
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1954
Total Scaffold Genes6 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (66.67%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizoplane → Unclassified → Unclassified → Avena Fatua Rhizosphere → Avena Fatua Rhizosphere Microbial Communities From Hopland, California, Usa

Source Dataset Sampling Location
Location NameHopland, California, USA
CoordinatesLat. (o)38.972988Long. (o)-123.116539Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002111Metagenome / Metatranscriptome592Y
F019193Metagenome / Metatranscriptome231Y
F019580Metagenome / Metatranscriptome229Y
F019913Metagenome / Metatranscriptome227Y

Sequences

Protein IDFamilyRBSSequence
Ga0150985_1119552401F019580GAGVYVRHLTSLQFLTYVSFLGVVLAMVMRYLPGKAPPLRTEPYPEEELGAHDGRLAKYFVAGGLFLVLGGLHMAVKNLPWPAQWLAGGGYPGHLVRDLSNTHVMIVGGGTLIATGLCWYALPRIVGRPLASNALAQCAFWFTAAGLAVFYVALIGDGIEMARLVHHGWTYPDAKA
Ga0150985_1119552403F002111N/AMGAAPPFASFSSFTEGVASPAQWPVLYASLQAHKAHVQEYPGCQRFDVFVRIEDSGGARFHCYTTWDTPEQLEAFLERGYTVERLLADVGGIHAERSIVLEKLF*
Ga0150985_1119552404F019913AGGAGGMGMPSGSSPEEAQAYYHYMLSQHQTEGRVTTWYVDWLSLAWLWGFVAAISLILIWWIWQYRTTRQKTGIYPVDAWSGYATELAGPASLFFVLLCALITGFAVALIVGHLVNGQIF*
Ga0150985_1119552406F019193N/AELKAWVATQQRLTANPSFDARPVTDPFMQEAMRVFPGLSPADHLVLNDGKTPLSLDQAAGAIRALYTDMLNRAWTDAARRGEKLPPDSQKLIPPEVPGQQ*
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