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 Ga0255147_1000270

Scaffold Ga0255147_1000270


Overview

Basic Information
Taxon OID3300024289 Open in IMG/M
Scaffold IDGa0255147_1000270 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Altamaha River, Georgia, United States - Atl_Miss_RepA_8h
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)17887
Total Scaffold Genes30 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)16 (53.33%)
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 → River → Unclassified → Freshwater → Freshwater Microbial Communities Amended With Dissolved Organic Matter (Dom) From Various Rivers In The United States

Source Dataset Sampling Location
Location NameUSA: Georgia
CoordinatesLat. (o)31.4271Long. (o)-81.6053Alt. (m)Depth (m)5
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002317Metagenome / Metatranscriptome571Y
F002867Metagenome / Metatranscriptome524Y
F017122Metagenome / Metatranscriptome242Y
F022403Metagenome / Metatranscriptome214Y
F043896Metagenome / Metatranscriptome155Y

Sequences

Protein IDFamilyRBSSequence
Ga0255147_10002701F022403GAGMPLRHGSKIYCQLLLDANRYKLAEQLAAAEGKKVTGMLREMVYAALEKALPASEYKAALAADEAVWRESVKKRVEGRMRSRQEQGESDKDA
Ga0255147_100027010F002867N/AMIVHSTKFEGGFSLEQLENERGEIYYRACKDSICRYAEDEYIARMYLEGMGWDPTA
Ga0255147_100027011F002317N/AMEHHEEVLITAKPPESPFNQVVPALLTAAVVGLAGLFMQVAKLDQSVGTVAADIQELKNDSKERLSDLETRVRQIEMRVGYNK
Ga0255147_10002703F017122GAGGMNPLQWDLDQEVQLGEGVSRTSSEKAKLFELRIWLPGQGAMRDLVRAESLKQAIEFAQNRYPKCRVEVPGSVAGKPKLARSSPGPKEKARRRLNLVEKQREQN
Ga0255147_10002704F043896GGAGVSKTEVPQWAKEAWGRVIVDQSRVDLLEHLYAWDGRDDKSHPYHHTYTGLYEKYNGR
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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