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 JGI25382J43887_10059757

Scaffold JGI25382J43887_10059757


Overview

Basic Information
Taxon OID3300002908 Open in IMG/M
Scaffold IDJGI25382J43887_10059757 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from the Angelo Coastal Reserve, California, USA - Sample 08_20_2013_1_40cm
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2065
Total Scaffold Genes4 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Grasslands → Grasslands Soil → Grasslands Soil Microbial Communities From The Angelo Coastal Reserve, California, Usa

Source Dataset Sampling Location
Location NameAngelo Coastal Reserve, California, USA
CoordinatesLat. (o)39.718176Long. (o)-123.652732Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F008484Metagenome / Metatranscriptome332Y
F019463Metagenome / Metatranscriptome229Y
F068660Metagenome / Metatranscriptome124Y

Sequences

Protein IDFamilyRBSSequence
JGI25382J43887_100597571F019463AGGAGGMVELRFRIRNNVFNLQEPPRKATIRPLSLCLPSVEEAALLGEVDETGRVTPRRGVFFLSNLRTGPVIEGFEDCAIGEFVKAQIEALSQNGEPPAKCEVHGLDPFLELAEPDQVDRLRDLISVCEFRSNEFTPESAVRFLKESGFFDEYIIVGVKRGNGW
JGI25382J43887_100597572F008484AGGAMMTTFTDAELKLVRKLAMQPPLTVLQIKKACPTHSVCTPLPLFRIYKIDDASFEAQWNGYHDTGPKQVFRFENSEKGD*
JGI25382J43887_100597574F068660N/ALETALEIDPYVYWGHYRMARVFEQKKDIENASREYEYLVRYAFDRDADIYLKLGTIYKDAGRKRDALRVLAKGTRILSTNPAIYRLYREVQGGN*
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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