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 Ga0209283_10000957

Scaffold Ga0209283_10000957


Overview

Basic Information
Taxon OID3300027875 Open in IMG/M
Scaffold IDGa0209283_10000957 Open in IMG/M
Source Dataset NameVadose zone soil microbial communities from the Eel River Critical Zone Observatory, Northern California, USA - CZOApr15con2H1.8 metaG (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)15113
Total Scaffold Genes18 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (55.56%)
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 → Unclassified → Vadose Zone Soil → Vadose Zone Soil And Rhizosphere Microbial Communities From The Eel River Critical Zone Observatory, Northern California To Study Diel Carbon Cycling

Source Dataset Sampling Location
Location NameUSA: California, Eel River Critical Zone Observatory
CoordinatesLat. (o)39.7291Long. (o)-123.6419Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005236Metagenome / Metatranscriptome407Y
F023303Metagenome210N
F030713Metagenome / Metatranscriptome184N
F034521Metagenome174Y

Sequences

Protein IDFamilyRBSSequence
Ga0209283_1000095714F005236GGAGMGFLSTMGKILIGLAMLTLPVAVSLILVFSETLATIGVAISLGASIFVFFCGIYAGFLGIKYERLQEQFESFVNPLRIRANAVNLIKAICPIDHEHVVFVHVSPHRDDARPDGLDIFLGSCGHEVHRGEIEVEQPAESA
Ga0209283_1000095717F034521N/AVKHHQDPAVKRQILSDIELKILETIRTEGSIRTDRLRKKLKLEAKENNSKFHRSLRNLESYALIVGVEDPHPEKHLHANIWQTWETRTHEGRGPNSLLYGEALGKLLVKTIDSCVLVREDQIPKWFEWSTHMQPVKEKLLLDGAVLRSGPYLVSSKVRDLNN
Ga0209283_100009575F023303GGALVIALVGTLAATIISFALIALGRGSPSLAAYGIGSMSLFAFLLTIQVLHGKSESKDDFVKKGAVRTAIATSFTVAYLMLLALGLDPGLGLNLNNGILANFHLVYIFTIGTYFVTASLEKIVELVKGKSSIFG
Ga0209283_100009578F030713GAGMAEKKRLPPWEEAKLVFKMQEETRKRKLLEKDMQQRQGWAKRVGPNTSDELEENRKRLRDLQKRLEQD
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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