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 Ga0208942_1001078

Scaffold Ga0208942_1001078


Overview

Basic Information
Taxon OID3300027627 Open in IMG/M
Scaffold IDGa0208942_1001078 Open in IMG/M
Source Dataset NameFreshwater lentic microbial communities from great Laurentian Lakes, MI, USA - Great Lakes metaG SU08MSRF (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10183
Total Scaffold Genes30 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)24 (80.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Unclassified → Freshwater Lentic → Freshwater Lentic Microbial Communities From The Great Laurentian Lakes, Mi, Usa For Biogeochemical Studies

Source Dataset Sampling Location
Location NameGreat Lakes, Michigan, USA
CoordinatesLat. (o)44.5046Long. (o)-83.045851Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000447Metagenome / Metatranscriptome1128Y
F009531Metagenome / Metatranscriptome316Y
F023106Metagenome / Metatranscriptome211Y
F034575Metagenome / Metatranscriptome174N
F035304Metagenome / Metatranscriptome172Y

Sequences

Protein IDFamilyRBSSequence
Ga0208942_10010781F023106GGAMRISRRVTDEEKVAMKLGNTISDLRVDLELVGEYLAKSQPHVVYNRLQTIAESAKETKEGTNYAINGF
Ga0208942_100107811F009531N/AMTLKIELYEMNYACSPGGVDCWEATVQMYGSSNTATDFKTAGEALNWLLDRYPTQVLELRVSSLPAYEKEYV
Ga0208942_100107825F000447GGCGGMGYVEIFRIDNEGAGWIDLEQATPDELFNLEVGLLNEGALFTTKEND
Ga0208942_10010785F034575GGAGGVNSTDLDPYLMKLVELGMDGADILHGHLKTLMVEAESILDRCIEAEEYSEDAMDSMARTEATGYLDALTEVYALTYAIAFAKEEVKNRKEILGE
Ga0208942_10010786F035304N/AMDINTFREYIRLHAISLEQDLENEDGADSIVPYLEGAIHVSKHYLEVVSE
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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