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 Ga0163110_10000294

Scaffold Ga0163110_10000294


Overview

Basic Information
Taxon OID3300012928 Open in IMG/M
Scaffold IDGa0163110_10000294 Open in IMG/M
Source Dataset NameMarine microbial communities from the Costa Rica Dome - CRUD Field 142mm St17 metaG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)23000
Total Scaffold Genes50 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)12 (24.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → FCB group → Bacteroidetes/Chlorobi group → Bacteroidetes → Flavobacteriia → Flavobacteriales → Crocinitomicaceae → unclassified Crocinitomicaceae → Crocinitomicaceae bacterium TMED45(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Oceanic → Photic Zone → Surface Seawater → Marine Microbial Communities From The Costa Rica Dome And Surrounding Waters

Source Dataset Sampling Location
Location NameCosta Rica: the Eastern Pacific
CoordinatesLat. (o)2.0416Long. (o)-97.0511Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005287Metagenome / Metatranscriptome406Y
F007770Metagenome345Y
F016956Metagenome / Metatranscriptome243Y
F039679Metagenome163Y
F059455Metagenome134Y

Sequences

Protein IDFamilyRBSSequence
Ga0163110_1000029411F005287N/AVSAEEIPEYKISSADIVYSEHDIDECFEYKDGRGRVPDGIAVGYIRTTPMLKQEHFYLFADIKYSKYDHDYWNNYELENDIDRIILP*
Ga0163110_1000029436F016956GGAGMIDATETWKAPKEVALAIIDLALTHIKKVELNPEVATEGDNFDYWYSYDLGDGNYIDYNIYCGDDVCEIKQDGSGEYEYTDPSTWSWDVACYAVDPPTKDNPYHQINTDHEQYLFGYNKSYGNFEVEFEK*
Ga0163110_1000029438F007770N/AMSGEGLSVSFRRTPMTQDSNEELLREFQKIVYASQVTTHMKWYGEAHSVYMEEHGDEELQKWQQRGVAIKDTFNFCISVYDSWGEDSDLYESHQRKDSFVSLAKEFAMDNWLLYFPHGFPAEWIEGEIIDGEKNWNHYNVKSDDKNIDKICKIWHHYGMQLLEAEELGQSEKMKSFYWDQAREEVKSIMEK*
Ga0163110_1000029440F039679N/AMSAKNSHLTIREDLIEEGLSVPVWFLDYKEDTHVEDTPTLNIDCDYCTDGEELNDYGANIIVKITDSSQKDQYGNPWKDRLAFAMSVDFDWN*
Ga0163110_1000029450F059455GGAMINNNSLTEEVTWSEGRTKKELAKQTFWSSSKDCSGLSGIEVRAYDFNVHVGCTAITSQGRSHNKYFQIPVDKIQEFCNALMK
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