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 Ga0008090_10245595

Scaffold Ga0008090_10245595


Overview

Basic Information
Taxon OID3300005363 Open in IMG/M
Scaffold IDGa0008090_10245595 Open in IMG/M
Source Dataset NameTropical rainforest soil microbial communities from the Amazon Forest, Brazil, analyzing deforestation - Metatranscriptome F II A100 (Metagenome Metatranscriptome)
Source Dataset CategoryMetatranscriptome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)1598
Total Scaffold Genes2 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → Alphaproteobacteria(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Tropical Rainforest → Tropical Rainforest Soil → Tropical Rainforest Soil Microbial Communities From The Amazon Forest, Brazil, For Analyzing Deforestation At Different Spatial Scales

Source Dataset Sampling Location
Location NameAmazon Forest, Brazil
CoordinatesLat. (o)-10.0Long. (o)-62.0Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F035101Metagenome / Metatranscriptome173Y
F070914Metagenome / Metatranscriptome122Y

Sequences

Protein IDFamilyRBSSequence
Ga0008090_102455951F070914AGGMRVFASTMLMIGAALSAFTTPFPGQSVFADSVEPATVEAELDTSALCNPEDIAVHAPQPSSTSERPCPADTREPDETARARAYLIATATPGYTMTRQGPERAIGWLHPEFVKRLAAAIAEARGAGLLFAGIFSAYRPPVFGVGGFADKFHSLHTYGLAVDVTGIGAPGTPSALLWHEIAARNGVICPYGPYNLLEWNHCQPTWVKIIFADNPLRETVTADGPISLEDMFEVGHSLIAASGTVGAPTGDPPAHFFKPPQARPAMAIDTKTANSRITPKTTLSTLDGYTMRWPLLSGGRVGWPKGVPRIAMLDDETRSSGSRAANRRFSPPSLTSIPLMPNKEVPNKSTSPWGVQLVGGLS
Ga0008090_102455952F035101GGGGGMDAKSRDLALLSFLSLSCAVSAWAGDRDIFGSVFFALGTVAMLGAAY
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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