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 Ga0063391_1002073

Scaffold Ga0063391_1002073


Overview

Basic Information
Taxon OID3300003937 Open in IMG/M
Scaffold IDGa0063391_1002073 Open in IMG/M
Source Dataset NameSPOT_150m_metagenome_year
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterUniversity of California, Davis
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)40857
Total Scaffold Genes54 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)41 (75.93%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Oceanic → Aphotic Zone → Marine → Marine Microbial Communities From The San Pedro Channel, Pacific Ocean In The San Pedro Ocean Time-Series (Spot) Study

Source Dataset Sampling Location
Location NameSan Pedro Channel, Pacific
CoordinatesLat. (o)33.55Long. (o)-118.42Alt. (m)Depth (m)890
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F018549Metagenome / Metatranscriptome234Y
F087221Metagenome / Metatranscriptome110Y

Sequences

Protein IDFamilyRBSSequence
Ga0063391_100207320F018549AGGAGMSEEITNETEVQSAPGDKNWKAIREENKALKDELAQYQVKERDVLFQEIGLDRTKGIGKAADQMYEGDLAADALKAFVSEEFGEEVFGQQDSFRETVNAGQDRLDNLASQAQAVSANTSVQEQIAEAQQTGRVRDSIATKMKALEELEKNK*
Ga0063391_100207323F087221AGGAMSTNIKGLIDRTYREYLEPMEDMVSYTVLSGALSVSDTSVGFNGDLLSTEEEDALDAGTIIEIGQELMICTELNVVTNSITVTRAARGTTATTHNAGDVIKITPQFPRVNVFNAIKDQIENLYPTLYAVETQTISSAVGYVALAGADDDRIVAPLKAVSQYQELDAGNQTTVQFRGVAMELIDVPTTVTASGKVVQFSGVSNGVNVHCTFKKKFGEVKDYDSDGDAEDTTLAEIGLETEYEPIIMAGVAAQMISGKDIPAYTADYITEQMQVTNYPVNSSSNIRNSLLQYQQVLINQARKDLRARYPEPVSVNSVVYPSA*
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