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 Ga0102945_1002078

Scaffold Ga0102945_1002078


Overview

Basic Information
Taxon OID3300007609 Open in IMG/M
Scaffold IDGa0102945_1002078 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
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)5643
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)14 (87.50%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(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?
F001588Metagenome / Metatranscriptome667Y
F015039Metagenome / Metatranscriptome258Y
F074500Metagenome / Metatranscriptome119N

Sequences

Protein IDFamilyRBSSequence
Ga0102945_100207813F001588N/AVYVQVNKIEGYNMQTTTNNYVFLNASDAAIVVKVNNTVVAACYNAAQLAAVFKQHNINVLTDTIMCSSSIDFAEEEGFATDNCAHNIIDAAMQQLA*
Ga0102945_100207815F074500GGAGGMQKQYTLADFTNLEYYNKLRCADGDVVQYIAKRKRAKTHCLITVKNNTVLKVQKY*
Ga0102945_10020783F015039AGGAGMSNTRRIYVTVALDILTDANEQEVIAECDYTFEHADIVDTEIMGEDEHYA*
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