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 Ga0307409_100099937

Scaffold Ga0307409_100099937


Overview

Basic Information
Taxon OID3300031995 Open in IMG/M
Scaffold IDGa0307409_100099937 Open in IMG/M
Source Dataset NameMaize rhizosphere microbial communities from greenhouse at UC Davis, California, United States - 322HYB-O-2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)2404
Total Scaffold Genes7 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)5 (71.43%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Terrabacteria group → Actinobacteria → Rubrobacteria → Rubrobacterales → Rubrobacteraceae → unclassified Rubrobacteraceae → Rubrobacteraceae bacterium(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Host-Associated → Plants → Rhizosphere → Unclassified → Unclassified → Rhizosphere → Maize Rhizosphere Microbial Communities From Greenhouse At Uc Davis, California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.5Long. (o)-121.7Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001264Metagenome / Metatranscriptome735Y
F002196Metagenome / Metatranscriptome584Y
F003251Metagenome / Metatranscriptome497Y
F009855Metagenome312Y

Sequences

Protein IDFamilyRBSSequence
Ga0307409_1000999372F001264AGGAGMRPEQTVSEMAQETLLKQARTLAQRNGEPLLQALEAVVETPAGMQLEELRSGPHQDEEARYWQANLLFARVSEQAGHPPAAV
Ga0307409_1000999375F002196AGGAGMSRAAEDGRALLEAAKQIHVERHGAHTFLPGTYLSFLEAAKRTGIRSDRQRYHDAIEDLEYEGAIEWDKSARYARGDKHYLITQRGLHDLGSA
Ga0307409_1000999376F003251GGAGVQTKTYTTEKEAKKAAARDYRPAILRLPNGRYACFQAGDALPQGARAVSRWGTDRWHAYE
Ga0307409_1000999377F009855N/ADVETTRYGRDYAGRRGKITHVDKHPQTGAATGYVLRMEEGGNEVRFESEEVRIIEAWD
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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