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 Ga0224500_10001410

Scaffold Ga0224500_10001410


Overview

Basic Information
Taxon OID3300022213 Open in IMG/M
Scaffold IDGa0224500_10001410 Open in IMG/M
Source Dataset NameSediment microbial communities from San Francisco Bay, California, United States - SF_Oct11_sed_USGS_4_1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)14173
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (76.19%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (50.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Sediment → Unclassified → Sediment → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.05Long. (o)-121.934Alt. (m)Depth (m)11
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F069007Metagenome124Y
F097620Metagenome104Y

Sequences

Protein IDFamilyRBSSequence
Ga0224500_1000141017F097620AGGVSRITSLRLLATLLLVLAVHGGTSAQAQAAASAPDRRVEAALEGAKLGFRIDAGDYRLDYTVDETRSQRVWVASGTTSLPPLEVRDVWSVAARGKGTVPADLAVHLLQENVRMVLGAWQVNQGKDEYLVVFSAQVNADADAAALREVIEVVMYSADRVEKELSGKDEF
Ga0224500_100014108F069007N/AMPKEPIKLLLPELEAEVVGEALELYLRARPAPLDHRYEYRYRAAHAVLEVLQRTLPEEDDPLPGRRRQAIED
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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