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 Ga0190265_10010192

Scaffold Ga0190265_10010192


Overview

Basic Information
Taxon OID3300018422 Open in IMG/M
Scaffold IDGa0190265_10010192 Open in IMG/M
Source Dataset NamePopulus adjacent soil microbial communities from riparian zone of Indian Creek, Utah, USA - 124 T
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)7011
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)9 (75.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Bacteria incertae sedis → Bacteria candidate phyla → Candidatus Rokubacteria → unclassified Candidatus Rokubacteria → Candidatus Rokubacteria bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Populus Soil Microbial Communities From Riparian Zone Of Different River Systems In The Western United States

Source Dataset Sampling Location
Location NameUSA: Utah
CoordinatesLat. (o)37.9813Long. (o)-109.5168Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F020982Metagenome / Metatranscriptome221N
F041239Metagenome / Metatranscriptome160N
F059736Metagenome133Y
F073806Metagenome / Metatranscriptome120Y

Sequences

Protein IDFamilyRBSSequence
Ga0190265_1001019210F059736AGGAGGVSAERLLAPIAIRCAALGGVVLLATVPVYVFVEAPWRPLVARLAVAFVLGVALLQLRAAVAARLVRSGASPLEQALDRPGSPPAIPLRFEELIDDVRATRRSRGHFERIMWPRLTALASRPVAKPPARLGRGPSLAALRRVIADIEGEGEGEGEGKR
Ga0190265_100101925F073806N/AMTYTTEAFVRHSLHRILRSVKYRNSFVCLPCLVTMTLESLHRGWRPSEITRALDRIYAAPGVPMESRAAFRCAHCRNVKPCLGSPYL
Ga0190265_100101926F020982AGGAMARRHFMGSRIYKGLTYTLELEAIEESVFKAHARLSPSGPEVSVVDEASDAALKQAEAGIKHVIEQREAGAVVRERLAERTYGDVKYTIIVRTEATRVVAELYFIRANAQPRRPGPGTFLALFEGKTRQGAIGQAERGLKAKLDKERASHRGGTLR
Ga0190265_100101927F041239GGAMPEPGLGLSALWEERDYKACGGSIECRGRFILSKLFDRDTRMLQAAWLAAFGTRVLGPPEIRTAQITKSQWQVILSRMGASPREIADVQTRMSRA
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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