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 Ga0193751_1000001

Scaffold Ga0193751_1000001


Overview

Basic Information
Taxon OID3300019888 Open in IMG/M
Scaffold IDGa0193751_1000001 Open in IMG/M
Source Dataset NameSoil microbial communities from a riparian zone of the East river system, Colorado, United States ? L1c2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)531359
Total Scaffold Genes541 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)263 (48.61%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria → PVC group → Verrucomicrobia → Spartobacteria → Chthoniobacterales → Chthoniobacteraceae → Candidatus Udaeobacter → Candidatus Udaeobacter copiosus(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil And Sediment Microbial Communities From The East River, Co, Usa

Source Dataset Sampling Location
Location NameUSA: East River, Colorado
CoordinatesLat. (o)38.8924Long. (o)-106.9111Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000495Metagenome / Metatranscriptome1076Y
F022074Metagenome216Y
F033366Metagenome177Y

Sequences

Protein IDFamilyRBSSequence
Ga0193751_1000001249F000495GAGGMRRIFLSGMLFGVMITTAFTLAFAIPANSDYWRMEIWKRGGAAWTMDMKTGHTGWKWMVEPIPDAPIPAKRVIVPPSKVKVSVEQL
Ga0193751_1000001280F022074N/AMKKNFDARLSSELGAPAKWALMIFTLIFVSAANARQLSDSSAAGLDGQWYHNGKPTRILVAPDGRSITITNEFGQSNDGYANGPRNLVIPSLGISGEVNKKGRRISWTNGTEWTREPKNPGPDFGVNLSGRWFRNGQATSINVAPDGRNFTITNEWGLPGVGYITRSGELKIQSWGVTGHLSKNGQRISWSNGTEWTRPRLY
Ga0193751_1000001349F033366AGGAGGMKRIAKWLPLLAAIAVAGIASAASPKMVCTLTNKEVKTCCCETQNGKFLCKLTGKTLDKCCCTGM
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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