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 Ga0181403_1004578

Scaffold Ga0181403_1004578


Overview

Basic Information
Taxon OID3300017710 Open in IMG/M
Scaffold IDGa0181403_1004578 Open in IMG/M
Source Dataset NameMarine viral communities from the oligotrophic San Pedro Time Series (SPOT) site, San Pedro Channel, CA, USA ? 26 SPOT_SRF_2011-09-28
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)3043
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (77.78%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria → Rhodospirillales → Rhodospirillaceae → unclassified Rhodospirillaceae → Rhodospirillaceae bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Strait → Unclassified → Seawater → Marine Viral Communities From The Oligotrophic San Pedro Time Series (Spot) Site, San Pedro Channel, Ca, Usa

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)33.55Long. (o)-118.4Alt. (m)Depth (m)0
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001839Metagenome628Y
F004990Metagenome416Y
F008915Metagenome / Metatranscriptome326Y
F011253Metagenome293Y
F059875Metagenome133Y

Sequences

Protein IDFamilyRBSSequence
Ga0181403_10045783F059875GGAVHSKSLDLLTTYQFNIMKILTLIFGVITNNGQIDLIKVPNSELKNIDSCEKAIETHTKWVDNPDFDNNPLPWGFYTYKNKVVMLQYCTENGVYSG
Ga0181403_10045784F008915N/AMGFIVDNEITLDLYEMQSAAHLGILRCLESKKHKENWGYNYKGSLNDQMVKSISGAMGEVAASKFLGIKFEYHCNVGGVPDLIFKDLKLQVRTQIPKNNNSLIIRPKAKPGELYILIIDEAPKFKILGFVNSTYVLGQEQWKTTFGLDRPFCYSIPPEKLTPINLLKDSTWN
Ga0181403_10045785F004990AGGALELDDYFDPKKPCIICKEGADLRENNKYYCCDHYALYVLGKPMSQIEKELQNGN
Ga0181403_10045787F001839GAGMDKIKYFEKIDKDLINNRALNSHEKLIYIICKSFENAPRGCRISHKYLMQRTGIKTVPTLVRCLDRLTMFGCLARKQIDNSTCHYVFDKKTMQEYIQHNLNKRRRISLSKNRHNRNLNTALSSPNVINIGKVIK
Ga0181403_10045788F011253GAGMKDRKLELNNIIKNIAKNKSLPYANAITKIKKDRKGYFQAKDIKLKSKSLSTDRFQQYLKTIQEEDDTQ
 ⦗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.