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 Ga0102960_1005941

Scaffold Ga0102960_1005941


Overview

Basic Information
Taxon OID3300009000 Open in IMG/M
Scaffold IDGa0102960_1005941 Open in IMG/M
Source Dataset NameSalt pond water microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG SF2_B_H2O_MG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4663
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (70.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria(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)37.4972Long. (o)-122.1293Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F017488Metagenome / Metatranscriptome240Y
F052627Metagenome / Metatranscriptome142Y

Sequences

Protein IDFamilyRBSSequence
Ga0102960_10059413F017488GAGGMAFITDGGGNVVSFAEYTDILQKDQRLLESNVIKIPAESGFADVTEFLEDVLEKSTDRILLKLKASTWWQSYNAYVGNPISNLNALPNVNPNLIDPANKLNRRQQFTDLCVYHSMAQYILPLIADFGNPESEEVSKITYYDAKFNDLFNELISIADWYDYDADGTVQADEKAITYARTRRTRSRKSIVQVR*
Ga0102960_10059414F052627AGGMSKRTDLISQITTNIAAHTSFAISEELPFLSGGIPLYEKNMRTIYVDEQQIAVDELYDTLDGQAVNQTTTTINAYLSVDAKEQLTDIDTVVANLLVARNGIANTIESTSDYETDIVNDVITYTFEYNFITV*
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