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 Ga0222719_10002822

Scaffold Ga0222719_10002822


Overview

Basic Information
Taxon OID3300021964 Open in IMG/M
Scaffold IDGa0222719_10002822 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_34D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)15680
Total Scaffold Genes26 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)21 (80.77%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

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)37.495Long. (o)-122.0933Alt. (m)Depth (m)4
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F013719Metagenome / Metatranscriptome269Y
F036686Metagenome / Metatranscriptome169N
F091958Metagenome / Metatranscriptome107N

Sequences

Protein IDFamilyRBSSequence
Ga0222719_100028222F091958GGAGMGRNMDTVGDREYVMISSETWIDVKDLTVEIFKSKTGVEVRVLPRNSDNGVEPLGVIRADFIATTSKRQNVIPFLPRLHGYDPDR
Ga0222719_1000282224F036686GGAMTMKLIKITTIKDCQAGSVGIMLAGEDHDVRQDEANKLIDRGYAKLWSAKVAKVAKVDAD
Ga0222719_1000282225F013719AGGMKIRCKRNILIGGKEHVVGDIVELPENIGFDLVNTGKVEVYEEKQGITDRAIGLTKKSAASLVKRNTKKK
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