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 Ga0307478_10000003

Scaffold Ga0307478_10000003


Overview

Basic Information
Taxon OID3300031823 Open in IMG/M
Scaffold IDGa0307478_10000003 Open in IMG/M
Source Dataset NameHardwood forest soil microbial communities from Morgan-Monroe State Forest, Indiana, United States - atmos_gasesECM4C_05
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)430199
Total Scaffold Genes407 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)337 (82.80%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Hardwood Forest Soil → Hardwood Forest Soil Microbial Communities From Various Locations In The United States

Source Dataset Sampling Location
Location NameUSA: Indiana
CoordinatesLat. (o)39.0844Long. (o)-86.4705Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000238Metagenome / Metatranscriptome1494Y
F001220Metagenome / Metatranscriptome744Y
F002288Metagenome / Metatranscriptome574Y
F026325Metagenome / Metatranscriptome198Y
F100369Metagenome / Metatranscriptome102N

Sequences

Protein IDFamilyRBSSequence
Ga0307478_10000003119F001220AGTAGGMAKDTKVCHTLRICVAIFASFWLLAADAPPHVIEVLADKDSRYKIAGERTPEIAVKAGEHVLLRITARRGKSWNRDGSIHGFSLLRAKDRSKVPGWDLLLQPGAQEFQLIAPAEPGEYIVVCTVICSEEHEGMHMKLVVMP
Ga0307478_10000003179F000238N/AMAPKPRPPRWYAIPVRVVLVTFIGTLLSFAVSLLLGIIGTVVVAVWRHINPDMTAAYRHIALPAALVAGSIIFVLALAMEIRHYRQSKTLAAIARVS
Ga0307478_10000003351F002288GGAMDEADGAHKRRVFRWSKEATELAREYKERTNRSQEHNEIGRRELVTALAEISGNPRDACLRFLRELGVNQKRVYREWTKPEQQRLLDLISSLPVEEVAKILRRPAGSVRSMLHRLGMGGKTGREWFTKFSLSRALHTRPDEIQKWIDRGWLKSRSVDTAGTKASIIDADDFCQFVRQHGHAVVNRRLTHETLWFVQNYVFPPSHADLLSVRGTYKKQVGSDPNANAEFQPESGSDKEGEQGS
Ga0307478_10000003378F100369GGAGGMPGDETIRKRDQQRLRQWALTLGSSVQSREVRVALQYLQALDVCDALTQSAERQTEFASAALFRFGLDTLAAGFWMACIATDEWLKGEGNAHIPSSLERTIAALPQQAQKMLDEVVKTGFVNDSERTLLKDVLNPATHGDALVNAVRIGSASAQGTNWAHYLSKLMNQLTHNFVILIRELAGIDLESVAGKNSAPAQQD
Ga0307478_10000003383F026325GGAGGMMSHPSVAIKREVCQLVDRQIETLRQPASLTSSDLGEYHARSEKITTLYRELDQVVRTSFWESRRAS
 ⦗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.