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 Ga0209235_1003431

Scaffold Ga0209235_1003431


Overview

Basic Information
Taxon OID3300026296 Open in IMG/M
Scaffold IDGa0209235_1003431 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from the Angelo Coastal Reserve, California, USA - Sample 09_25_2013_1_20cm (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8848
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (70.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Archaea(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?
F006340Metagenome / Metatranscriptome375Y
F007853Metagenome343Y
F015711Metagenome / Metatranscriptome252Y
F029079Metagenome / Metatranscriptome189N

Sequences

Protein IDFamilyRBSSequence
Ga0209235_10034312F007853AGGALSKRSPVEQEFLESKLEKALDDAWSKVNIALDKTTKSSVDVALEIWLAAEAVEYSSLLFNLTYGLEDLEPPVKIRKGGAAIVLVKDSMELLKRAREGRRKSPTDAYVNLRTAADYLKAAHLDQVKKSTKKRG
Ga0209235_10034314F015711GAGMNNVDVQKTRGKTKLVGSLFLGILVLLSVWISVAYFHVAYLEDYIANIIKPTGSLLRVTLIAALGGFIMSIPILRSLSRKDRTPQAKMKPIPQYRKQQVHPLFMTSRPARDTNFVIRKTKNRGKISRNRDGERLPPSYQE
Ga0209235_10034315F006340N/AMSPYWKGGANPPFVGATSTSRYVALVAALTALFTAYGYVSSIELRSVTRSLDLFFLLPAFFAILVSLTGKKWAGTLLGTIIGLIFLGTPSAAGNFSPHITASVVVNGLVFDLYLQHSGGTLLDPSRKHLVLAGTLGNLAMAPTGLIVLQAVGAPSSAVIWAIALIGDTLVGSAGAFFGTLVVERVKGVQARRVLEAKSAVRVRV
Ga0209235_10034316F029079GAGMPQRSEEPTQSSLAEILGKMSEKGYALNFDVTLELATPTLKVGTVRVHGKVESEALKKR
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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