NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
x
This website uses cookies to improve user experience. By using NMPFamDB you consent to all cookies in accordance with our privacy policy. OK
Scaffold Ga0222718_10001786

Scaffold Ga0222718_10001786


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10001786 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_27D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)20022
Total Scaffold Genes14 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)10 (71.43%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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

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)37.6183Long. (o)-122.2916Alt. (m)Depth (m)12
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F003196Metagenome / Metatranscriptome501Y
F003423Metagenome / Metatranscriptome487Y
F020902Metagenome / Metatranscriptome221Y
F077364Metagenome / Metatranscriptome117N

Sequences

Protein IDFamilyRBSSequence
Ga0222718_1000178612F020902GGAMEEFVEAEFWDMVYNEYGVMDEMDILSENITEIITPQKGIIILITKDFHNGKESN
Ga0222718_100017863F003196AGGMQLQKQVLIDVSADNSNSTAAQCDGLLLSGIEFPATMTGSNVTFDFSYDGSTWVDVVETDNTEVTYVVSQGNMVRVDPSGWAFAAIGFLRVTSDGNEAADRKINLVFKQS
Ga0222718_100017865F003423GGAGGMEEFDAPQEHGVKQLRETVERKDEQLKKLEAELASFKDKELNNVFGKLGLQTDSGFGKALKQVYNGPVDIESISQFAKDEYGYESNTQVQEQAQPAPEVSIQDDARSRVAALDANSVSDVPAGVDEQLANILKNGSVKDSLAAKLNIMENQKNNK
Ga0222718_100017866F077364AGGAGMAAIVEGTNNQVTIYKDGQVSTAQEGRREKETASELNRKLADGWSLSPQESTPTPTPYNPRTASQGYNLATTLFGFMPEEVLKAYSAEWVKSGDPNVAIGATRQTKAWKDNFGKLMRDDGSLVMDELSFMSVKASYKQTLAEVGIADFTDFEDEFTDMATGYETGDPVSAEEFQVRVDTVYAGVKDQIPEVEKLFRERYNLTLDQPTIFAALINPKIQDKVLAGEIATIQLQAQASSRGFTTSFARFDELRKMGLTSAQASQLYEGAGGMISQAASIGRDLSLETLEEATLGDEASAKRLGRISAELQSKQGIQLGSAKKGDEVTGLIAD
 ⦗Top⦘



Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
© Pavlopoulos Lab, Bioinformatics & Integrative Biology | B.S.R.C. "Alexander Fleming" | Privacy Notice
Make sure JavaScript is enabled in your browser settings to achieve functionality.