NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0209488_10000554

Scaffold Ga0209488_10000554


Overview

Basic Information
Taxon OID3300027903 Open in IMG/M
Scaffold IDGa0209488_10000554 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - Rivendell_Oct2014_Saprolite_2_DNA_Bulk_2 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)31684
Total Scaffold Genes39 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)33 (84.62%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Acidobacteria → unclassified Acidobacteria → Acidobacteria 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 NameUSA: California, Eel River Critical Zone Observatory
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F019009Metagenome / Metatranscriptome232Y
F022503Metagenome / Metatranscriptome214Y
F026653Metagenome / Metatranscriptome197Y
F055974Metagenome / Metatranscriptome138Y
F072557Metagenome121Y

Sequences

Protein IDFamilyRBSSequence
Ga0209488_1000055410F022503AGTAGVTILRGMGALRHLLIVVVIGVVFRWLWKSSLNEHASVEAGRTVFPPTRAVRILAVLFGVAFTGLFLWSWFAVRKPDEWWVPYLFLGFVALSLCIYPSVLSIEVDGIGSRSWLGRERKIRWEDVTSLRYNTGNKQFTVCANDGRKITHAGFNAEAGLFQNEIRKRTRLPMKLMRPGTWKAETIEVPYEEIETEEQVVDSAL
Ga0209488_1000055425F055974GGAGGVLTKTKQGALVVCLFLFLFVVIGGGLHLNPGGAFLAAATGTPLAIHVFNRRWAGRGAEHNPTLSSRSPGSVRSVGEADVGHPRASETESFVRQ
Ga0209488_1000055436F026653AGGAVLRRLEAFVFFLAMMLAVTLEGACVYWMCGHPRPYATTEGSLDFVGEWTSLALPQGWLLGALLVLIYRVTAMFVPPRRWTDNEFLQNRRAFLRLWRWAMALAAMQGLTLFLGRAAAAL
Ga0209488_1000055437F072557AGGAGGMLRDDLRKRPDLGFRRTVADHLLEPLSPFDANSVRRPQRWFVLSSFVSLAAVGSVVYFNFWN
Ga0209488_100005544F019009N/AMTFVIFHASAMADIPQRDSIRAVCHSRGNMKASRLLWLVWMILTVVRSVTLGQDAPRQPEVTRALLQAKTVYIISGHVRYYKTKGLFKKELVDTTPFEEPCRKNLEKWGRFTLVSDMKGADLVIRAYEKGQSNYVPVMSPGVTGSVNVGQSFVILDVWQPSSKKVIWSASKNDATTWSNNTAIEHLVKKLREDIEEREKSAPKSDGVSKAGSANPQN
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.