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 Ga0222714_10036940

Scaffold Ga0222714_10036940


Overview

Basic Information
Taxon OID3300021961 Open in IMG/M
Scaffold IDGa0222714_10036940 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_3D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3546
Total Scaffold Genes11 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (54.55%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Associated Families6

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.0516Long. (o)-121.88Alt. (m)Depth (m)13
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002867Metagenome / Metatranscriptome524Y
F003805Metagenome / Metatranscriptome467Y
F006109Metagenome381Y
F007971Metagenome / Metatranscriptome341Y
F017122Metagenome / Metatranscriptome242Y
F043896Metagenome / Metatranscriptome155Y

Sequences

Protein IDFamilyRBSSequence
Ga0222714_100369401F006109AGTAGMTRYVVMVEDRWVTAVYGPGKGIGFTRSKEDASSWVTYERAVAAARVVADCTNSPVAVHSIDEPAYPRSWK
Ga0222714_1003694011F007971N/AMAVKAKTGTGRLDHQAGRPKTTKQGYGQHSRPRRRGKKKLVGQGR
Ga0222714_100369402F017122N/AMEVVPFQEQLDPELRLGEGRSRTSAAGTQLFELKIWLPGQGAMRDLVRAESLQQAIEFAQNRYPNCKVEVPTTAAKKPKLARAKNGPRETARRRLKLVEKRNESADR
Ga0222714_100369403F043896GGAGMSQQIAEWARQSWGEVIVDQNRADLMDKLYFWDGRDKKDHPLHGTYTGLYLKYTEN
Ga0222714_100369404F003805N/AMRPIEHTPESSFHKTAQDRWLVDLFNKQDYRGLLEAALVLNTLHQLEKTKTAWAIREAADNLAAQFGMDRDSA
Ga0222714_100369409F002867GGAMSVVHTTDYGNGFSLDQLENERGELYYRACKDSICRYAEDHYIAMMYLEGMGWDPKQQAH
 ⦗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.