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 Ga0181403_1001401

Scaffold Ga0181403_1001401


Overview

Basic Information
Taxon OID3300017710 Open in IMG/M
Scaffold IDGa0181403_1001401 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 26 SPOT_SRF_2011-09-28
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5707
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (57.14%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
Associated Families4

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)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F016292Metagenome248Y
F017045Metagenome / Metatranscriptome243Y
F020445Metagenome / Metatranscriptome224N
F072753Metagenome121N

Sequences

Protein IDFamilyRBSSequence
Ga0181403_100140111F016292N/AMDNRINIVGDCYKKFGLTHTSKSQNTIPDDIRFRNYILISKKEKANLPTNCSFTGGTISHEIIQAMKCQDKTFAEAFAIIKNKIDQYEPVDTKDEIKFGHIIENLEPLVDNHIKNIDEVGKQKWDAELEYTYWAKGIATYFLAYVDLVGKTHFGDIKNVFGTLTKTKAGFSYSKRKCPKVPFHSDCLQIALYSKLIPKHKPFLTYASDSDRIVFTEENCVELRKENLEYYYDELITYQKCWEKKLELADGNMKVLAMLCRPDFSEIRKNGFWWKGIDSNIIERFRACYE
Ga0181403_10014014F017045AGGAGMALSKSNSLTRRYAKLDKYHAEIMKPSKGKKNRQCVHSSVAFKKYVKTFRQICLVENADAKFMYSP
Ga0181403_10014016F072753AGGAMKLKNNGHIYLSKIKYDVLKYISTFIKQHRYSPTYKEIAIKFKFSRARAGAIVAELFKLNLISKGGSAHRKIRLTDSQTDSIPTLLYNKEYSAMDLRR
Ga0181403_10014018F020445N/AMADNNYDNSGAMWKRQPRETDKPGGKYPHYQGNIQIGGVKKNLAAWLNTEKTKDTQPDISLKISDIVAKEDAPF
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