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 Ga0099791_10003460

Scaffold Ga0099791_10003460


Overview

Basic Information
Taxon OID3300007255 Open in IMG/M
Scaffold IDGa0099791_10003460 Open in IMG/M
Source Dataset NameVadose zone soil and rhizosphere microbial communities from the Eel River Critical Zone Observatory, Northern California to study diel carbon cycling - Rivendell_Oct2014_Saprolite_2_DNA_Bulk_1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6424
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (40.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → unclassified Verrucomicrobia → Verrucomicrobia bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling

Source Dataset Sampling Location
Location NameEel River Critical Zone Observatory, California, USA
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002603Metagenome / Metatranscriptome544Y
F005677Metagenome / Metatranscriptome393Y
F009929Metagenome / Metatranscriptome311Y
F037855Metagenome / Metatranscriptome167N

Sequences

Protein IDFamilyRBSSequence
Ga0099791_100034602F037855N/AMEEPQLEASPKEKFDTLFGLLKDNYAGLFDFEFKNVTVLTLLLGWTLASNDARSFLHDHRGIACCACVAVLLYAALLLISVWKFYRRSLLAYTHLSELGYMPTEYFRMRRIQPFTVVSFAALNWAVAFLIIAVILFT*
Ga0099791_100034604F005677GGAMLVVSGVRASDNWVQLNNTHGWSITYPASWEAYVMQAPDSGPELSIRESENVNFDGPKDCYERKARCGHFQIYSASTTPQAEVKKYVDEEMQNQKIISKEAGQLDGMPAYFIRLPEDQRLVIVKSKSLIFHISYGPNDHKPTDKTLEEIFDRMMSSLKFNK*
Ga0099791_100034607F009929AGGMKFFCFTGAHRPAVFSSIDMKTIILILAAIATMSAGMCLDAEGQRLPLLEGQADSRTPLPVQFRVSVEKGIITLTDVNSGKVMGRTTFERWGVVTPTQDKLRHVALDVTAAVVAGNGSRERTVNPLHKVYTVTDHKKGKAAYVTMTLEHDVAFVLSSDTQTNGRYEALIENRP*
Ga0099791_100034608F002603AGGAGMTAIAVRFPDESVELENVEERRVLTALEVIYEGGWLHGKTVDFPTRDLERVVVGLHLRNWHFFETYKRTICVDIHSQRTIFRHAGTFKPNNSSWWERLLAVLRIHKLKAIEI*
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