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 Ga0222713_10011280

Scaffold Ga0222713_10011280


Overview

Basic Information
Taxon OID3300021962 Open in IMG/M
Scaffold IDGa0222713_10011280 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_649D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7990
Total Scaffold Genes21 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)17 (80.95%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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

Ecosystem & Geography

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

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.06Long. (o)-121.8Alt. (m)Depth (m)12
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005502Metagenome / Metatranscriptome398N
F016963Metagenome243N
F020510Metagenome / Metatranscriptome223Y
F072095Metagenome121N

Sequences

Protein IDFamilyRBSSequence
Ga0222713_1001128010F016963GGAGGVIEVLPDETTHEQLLNRVRSLARELAEAKAALAAAEGRENDLIDRIRSGL
Ga0222713_1001128011F005502AGGAGMRTLLSILAVFGFSTGKLGNALIDLRPIAKKIDVKKIKVRITGYWPGEDEWSSRYQSSTGTRLRAGRHCAVDPDIIPLWSKIRILNGKREWVAVDTGTAVKSKKASGGKLPVVDVFAASEKQFNAMRLPKVAMVEVMK
Ga0222713_1001128013F020510N/AVSLQDLLAMFEGKVIGTYTLEQYAEQVIVARNNRMRWGMGQW
Ga0222713_100112804F072095AGGAGVIRDLEKEGVLPATASQSYGSAQLSQTTALIDLQVKNRELRNRVEKIEDILKGLIEKQGANL
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