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 Ga0181417_1017960

Scaffold Ga0181417_1017960


Overview

Basic Information
Taxon OID3300017730 Open in IMG/M
Scaffold IDGa0181417_1017960 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 40 SPOT_SRF_2013-02-13
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1782
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

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?
F019327Metagenome / Metatranscriptome230Y
F033761Metagenome / Metatranscriptome176Y

Sequences

Protein IDFamilyRBSSequence
Ga0181417_10179602F019327GGAVTLKHYTLRPTELDSKHISQIHKIINQVIEKKTDEYWKNYEDYSVYKQTAITIGLIDEDVKTFSSIYNREFYGDNVYRLFNRFLVSDDIRETGGSKTYGGEHRFFEMVHQQIEYVKSLNPSFYFMSRQRKNTKWLRWYFDRFNKQYGTDLMISDKQYMVCNGSEYDCSQTLIYPKDKIVPFKSYK
Ga0181417_10179603F033761GGAGMTIINNHTTMKLDDTFQGNHTELFTFFENQGLDVEIHHDFAGLRTLLLSKGDDDYPYDFDPAFETEINNATGFCLYLKLGDDVVATYAAKKLMYATFIEGMKAKFDGTYENPDLGTTLEEAYSSCQWVSKDHRGKKWGRALDHLKKDVVFDIMKCDLNYAIHKEAYTDYHTTHLAYEVSEKLALIPNGDVGGAGEAIDKIYNITYINSTQWTNKQSDIKALYS
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