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 Ga0222712_10089358

Scaffold Ga0222712_10089358


Overview

Basic Information
Taxon OID3300021963 Open in IMG/M
Scaffold IDGa0222712_10089358 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_657D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2181
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (55.56%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
Not Available(Source: )

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)38.1516Long. (o)-121.6883Alt. (m)Depth (m)10
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003805Metagenome / Metatranscriptome467Y
F004722Metagenome426Y
F006109Metagenome381Y
F017122Metagenome / Metatranscriptome242Y
F043896Metagenome / Metatranscriptome155Y

Sequences

Protein IDFamilyRBSSequence
Ga0222712_100893582F003805GAGGMRPIEHSTESKFHKAATDQWLVDLFNKQDYRGLLEAALVLNTLHQLERTKSAWAIREAADNLADQFGLDRDSA
Ga0222712_100893583F043896GGAGMSKSELADWARQNWGQVIVDQSRMDLLEKLYEWDGRSNPEHPNHHTYTGLYEKYTQR
Ga0222712_100893584F017122N/AMEVTPFQQQLDPEVRLGEGRSRTSAASTELFELKIWLPGQGAMRDLIRAESLQQALTFAANRYPNCKVEVPDAVAKKPRLVRSNNGPKESARRRLKLVESKNE
Ga0222712_100893585F006109N/AMTRYVVMVENRWVTAVYGPGKGIGLTASKEDASSWVTYERAIAAARTVAECTNSAVAVHSIDEPAYPRSWK
Ga0222712_100893587F004722GAGMAWLMKEIRQAKTSDLHRAAAFLEWARDVRKGCTKQRSSARVAQSNAWRKGLDEDVRWRV

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