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 Ga0209953_1001970

Scaffold Ga0209953_1001970


Overview

Basic Information
Taxon OID3300026097 Open in IMG/M
Scaffold IDGa0209953_1001970 Open in IMG/M
Source Dataset NameSalt pond water microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R2_restored_H2O_MG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5856
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (88.89%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)5 (100.00%)
Associated Families5

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes → environmental samples → uncultured Caudovirales phage(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Non-Marine Saline And Alkaline → Saline → Unclassified → Pond Water → Salt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration.

Source Dataset Sampling Location
Location NameSouth San Francisco, USA
CoordinatesLat. (o)37.4958Long. (o)-122.1331Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F021020Metagenome / Metatranscriptome221Y
F034945Metagenome / Metatranscriptome173Y
F042350Metagenome / Metatranscriptome158Y
F062573Metagenome / Metatranscriptome130Y
F090460Metagenome / Metatranscriptome108Y

Sequences

Protein IDFamilyRBSSequence
Ga0209953_100197012F042350AGGAMPGRESELLRGYIQGVAAMMNLITSDKVRALDKTNVLGYARELVEAKREEETNVPR
Ga0209953_100197015F062573GGAGGMVKQLKEYEILDITAYTVHAFDEEHALRKFGRYDYVEEGDTWPQARELGPVNMSGTGPDGIEVYMPS
Ga0209953_10019704F021020AGGAGMSDVINLRNTVMVNNYDLNIWDKVGYETEYEEEGWAIEVYQYDYKGSPYGSGKHVPEHTITLTPTESKRLTLGWGPDLGGDYTSDADFWLDKDTFLETYTDIPERVFNLLWALPDYEQSLDLDPSVAV
Ga0209953_10019705F034945GGAGGMGDRANVGIRGTDGNTIFLYLHWGGEDRHGIVANAIAHAMAREGYDEAYFTRIFISRVIDKDWDKETGVGLSVNKLSASGDGYDVPIYNYTTKKIELHEEKWDKAGGFVKYTDIEYPRDMYLSEFGIRGVNSYV
Ga0209953_10019708F090460GGGGGMVNDKFSDKEYWEGIRDACEYFKDELGFEDATYTSLYQQATEELALV

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