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 Ga0222715_10027716

Scaffold Ga0222715_10027716


Overview

Basic Information
Taxon OID3300021960 Open in IMG/M
Scaffold IDGa0222715_10027716 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_9D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4119
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)6 (60.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (66.67%)
Associated Families3

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.0566Long. (o)-122.185Alt. (m)Depth (m)29
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002182Metagenome / Metatranscriptome586Y
F017421Metagenome / Metatranscriptome241Y
F046716Metagenome / Metatranscriptome151Y

Sequences

Protein IDFamilyRBSSequence
Ga0222715_100277161F002182AGGAMIYTEQEHEWLSTPERKKRVSNQTRDGQPPQAQDYRKHDWAIRTTIEVDGRTYIVPVQV
Ga0222715_100277167F017421N/AMYTVEKRKMIYIMTRKPVWYHTHCITPWRGNPVWYDPTWVIGDCELCRMDIEGQDWWNGSSYKNSQKRLFDTIELNQKYWY
Ga0222715_100277168F046716GGAGGMFGWIKRLYKRYERFTLEQYDVSPVVYKIGTKKYIKKKQFSKGPVPRTRYKK
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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