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 Ga0209802_1000243

Scaffold Ga0209802_1000243


Overview

Basic Information
Taxon OID3300026328 Open in IMG/M
Scaffold IDGa0209802_1000243 Open in IMG/M
Source Dataset NameGrasslands soil microbial communities from the Angelo Coastal Reserve, California, USA - Sample Angelo_129 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)41427
Total Scaffold Genes48 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)36 (75.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Archaea(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Grasslands → Soil → Grasslands Soil Microbial Communities From The Angelo Coastal Reserve, California, Usa

Source Dataset Sampling Location
Location NameUSA: California: Angelo Coastal Reserve
CoordinatesLat. (o)39.7392Long. (o)-123.6308Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003477Metagenome / Metatranscriptome484Y
F029702Metagenome / Metatranscriptome187N
F030710Metagenome184N
F058901Metagenome134N

Sequences

Protein IDFamilyRBSSequence
Ga0209802_100024322F030710GGAMEESGIMAFPFVARFHIRLRPPDGWEADARSNMGHTHNTYRLFADTEGTRLEMTFDVHLTGPYRLFAPFARGFIVRKTSREWDDYVVAMQSGR
Ga0209802_100024326F003477GGCGGMASNPASSFDPMEPFARDELLREVLGGFETFDYKLYGPIPLRFHRGQPTKYEFDLNLGVVHFTEQDFEGLSAIVRRINEKWGTQMTFCVYPSKEKARDMILNVRGSPMAPAEID
Ga0209802_100024333F029702GGAMKAHSIYAQQRTIYKCSCSREFDDIQKAELHLRNPPQEKVKSLRPKKHAPRRREAKTVMATAAEMSEPSGKRAWLSPSAEGDESQDGS
Ga0209802_100024339F058901GAGMISARAEFGVTMKRPNWKAIGFLAFIAVGAVSAALGCPFFRNPENYMSAGGFVGYVQHLVSVHRKT
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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