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 Ga0209388_1000850

Scaffold Ga0209388_1000850


Overview

Basic Information
Taxon OID3300027655 Open in IMG/M
Scaffold IDGa0209388_1000850 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 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6796
Total Scaffold Genes8 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (50.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Archaea(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?
F016387Metagenome / Metatranscriptome247N
F022177Metagenome / Metatranscriptome215Y
F029395Metagenome188Y
F039560Metagenome / Metatranscriptome163Y
F049864Metagenome / Metatranscriptome146Y

Sequences

Protein IDFamilyRBSSequence
Ga0209388_10008503F039560GGCGGMESLVVSPTAEPRGSSDIGDEFFFLKLFLRHTIDSASRAGAAPIETELFGVETRVERLGFYSTPVMNTVL
Ga0209388_10008504F049864N/ALAKFILSVGDDTFRILESEAKRRDVTVQQLLRAVIVPEWVRENPEVNPASMTPREIAPHMMHQSVYPGQRDQLLQTPVSRLRT
Ga0209388_10008505F022177GGCGGMEKTGEKIAENYKWTAFMKLKGQTWSRREEEILDEFDGFVQSLRGVGVDYNIIVMVEGGVPRQLHSDCDTRETGAGIGRDGSGA
Ga0209388_10008506F029395N/AMDATLAGNGKRYGLPESDVRDAKTDGRLRDLLVDLIASSKALDARVWLDGVYTDIDDEQVRGEWMNDRDVYFKVEGRIDKRNGS
Ga0209388_10008507F016387N/AMLELKPTPVSSSRSVTRTLRLDEDVEAGIVEMAEREQFSFNLLANRALRKLVEWEDKAGKFGFVQVPTSLVEKVFSILTDEEARELGREAGANTIPEMVLFWFKKFNPETALKALEMVGSYGNAFRLQYTIDGETDTVVLKHDRGPRVSAFYGEMFLSLFKPMGAKVETHETDGQIVATITRPPTSLGSEHRETPLIPKFPGAKNGRGYKR
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