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_1000007

Scaffold Ga0209235_1000007


Overview

Basic Information
Taxon OID3300026296 Open in IMG/M
Scaffold IDGa0209235_1000007 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)75932
Total Scaffold Genes102 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)74 (72.55%)
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?
F001899Metagenome620Y
F012766Metagenome / Metatranscriptome277N
F027130Metagenome / Metatranscriptome195N
F072171Metagenome / Metatranscriptome121N

Sequences

Protein IDFamilyRBSSequence
Ga0209235_10000071F012766GGAGGLETLREEEVLQLEEELLRRLEERFTPLIQQAAADAAKVVMHQLRLDLMSHISRHEDTIRRLKRSESALNHIPHTR
Ga0209235_10000072F027130GGAGMLERESSKDNKLNDYFRRRCCNYERFLCDRVWECALCAKQAGKVEPVELSLPTKAEALRR
Ga0209235_100000775F072171N/AMSESVADTSSPGLARSPGYERPAQNASGEDRKLGDEKAFASLLTDTVVESMADILGENVLSLLISKGMLDNAENPGELERQLSLTFGNGSVVLERMIVKALYRKLGIRSDSTIGFDYAKALDAARHVFGERRK
Ga0209235_100000790F001899GGAGGLVVTCNFRFEVRHEDEVVELRADHHTARVCESCLVLLTVHRRVHRMKVEKVIAEMAEPVPLVAEV
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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