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 Ga0222716_10000855

Scaffold Ga0222716_10000855


Overview

Basic Information
Taxon OID3300021959 Open in IMG/M
Scaffold IDGa0222716_10000855 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_13D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)25875
Total Scaffold Genes47 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)29 (61.70%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

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)38.0283Long. (o)-122.37Alt. (m)Depth (m)10
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F007289Metagenome / Metatranscriptome354Y
F016157Metagenome / Metatranscriptome249Y
F050774Metagenome / Metatranscriptome145N
F051146Metagenome / Metatranscriptome144N
F057329Metagenome / Metatranscriptome136N

Sequences

Protein IDFamilyRBSSequence
Ga0222716_1000085523F007289N/ALTELQKLRELALERANFRCEWPECNNTNYKLEMAHILGIGMGGRNKTEKFDLNNVAMLCKLHHDIYDGRTISLAKKEYRILLKSYLDYERQQ
Ga0222716_1000085524F016157N/AMSDNNNYTQKEMTTKIMLDIEKIFNKLDELQKDINTRPTRAEIYGWIIAGISIATLLNVL
Ga0222716_1000085525F050774N/AMKIDLKQLTPILITALLGVIGWLFNTIEELQIAHSSMMEQLRILEKDLDMQESLFSELLFKISG
Ga0222716_1000085537F051146GGAGMQKDEFIYWTNWLKIRWPNAKLNEFEIKSLFDDFKIYDDEVFGKVLLDYFESGNEFLDWSKIKKLCKEFQIQSYRDKSQLLSEQKQLESKKADPPSSLQSYLKMLGYKTFAEAVFYKTQDLYKFGGLRDWQREIFKPYVGLTYQVATEKGWRYGLGIELNDRRN
Ga0222716_1000085542F057329AGGAMNAGYNDVKELVMNVMGLSDWLQDKEPVEPDFKNDSCGGMNFTINWLDNTKSRYCIRLNADNTYDMQIFQYQNYKQLGLAIERSLPRESILMLLSTTYQEITSQSNQVLESLKFDLSKETQEILKNET
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