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 Ga0181387_1000113

Scaffold Ga0181387_1000113


Overview

Basic Information
Taxon OID3300017709 Open in IMG/M
Scaffold IDGa0181387_1000113 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 10 SPOT_SRF_2010-04-27
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)17552
Total Scaffold Genes40 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)32 (80.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Strait → Unclassified → Seawater → Marine Viral Communities From The Oligotrophic San Pedro Time Series (Spot) Site, San Pedro Channel, Ca, Usa

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)33.55Long. (o)-118.4Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F026128Metagenome / Metatranscriptome199Y
F056080Metagenome138N
F079330Metagenome116N

Sequences

Protein IDFamilyRBSSequence
Ga0181387_100011316F026128GGAMTKKVELPEFVRLSHYRISLIPINSQISEECAEQQGSFHSRSMRIYLDEDIIENGGSIAVDLVKHEIMHAIFYVRQLDGANEENIVNGMATHYTEIEKNNPDYLRWKLQNLN
Ga0181387_100011320F056080GAGMEILKKEDRRKIKPKFIGTKEQKAKGQGRVVMINVAESSLDILRSKKVLNNVQYYTALKLRRIWEKSRIGSYTSNFNKVGDINGWNDMAVDRIDAIYKLSRLHTWVGDYAFQLLYKICVEDHTIKEASAMYQVDRVYLGKRLREAIEELKKFFDQSYD
Ga0181387_100011338F079330GAGMRKIKVVLHHPLNIFTLVKSLLTITILEEVVAQYEVIDIHPSLERTRNLEKLIKLNKDSVYSKEVELDCFYECTELEDRELLARDFSTKSHDLTIN
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