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 Ga0310345_10017275

Scaffold Ga0310345_10017275


Overview

Basic Information
Taxon OID3300032278 Open in IMG/M
Scaffold IDGa0310345_10017275 Open in IMG/M
Source Dataset NameMarine microbial communities from station ALOHA, North Pacific Subtropical Gyre - HC15-DNA-20-500_MG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6037
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (30.00%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (40.00%)
Associated Families5

Taxonomy
All Organisms → cellular organisms → Archaea → TACK group → Thaumarchaeota → Nitrosopumilales → Nitrosopumilaceae → unclassified Nitrosopumilaceae → Nitrosopumilaceae archaeon(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Oceanic → Unclassified → Seawater → Comprehensive Metagenome And Single Cell Genome Sequencing From The Open Ocean Community Of North Pacfic Subtropical Gyre, Station Aloha

Source Dataset Sampling Location
Location NamePacific Ocean: North Pacific Subtropical Gyre
CoordinatesLat. (o)22.7719Long. (o)-158.0Alt. (m)Depth (m)500
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001625Metagenome / Metatranscriptome661Y
F005948Metagenome / Metatranscriptome385Y
F006551Metagenome / Metatranscriptome370Y
F062835Metagenome130Y
F064800Metagenome128Y

Sequences

Protein IDFamilyRBSSequence
Ga0310345_100172751F006551N/ALTDDTLRAFLRKIRIAAGKDPNVFLGSHEVYSEIQGLYMPSVRIPNPYGEALVQIDVNGIQTFRGTGVGIHVDSIYGIPFIPSKDAPSSSSDSSEVGRLFAFDTSDAEGYGYPRIGIQIAIPTEYYEATRRSPGYPFVNNAFVEKGVFRTMGETVCRHFKSQGKIRDIKL
Ga0310345_100172752F001625N/AMALTISSSDWTNANVRKTLSWQAALVSKLRVYAIKVTFGASDNYATNGVSADLKEGRISTLVAVIPTYTDSRQEVQYDKANEKIKLYDVGGNAQSKFVEVANASSTCNSKIFEFLVIGY
Ga0310345_100172753F005948GGAMVELNHAVVSFNSDTIIKGGHGVVVGVFVTKVGTGSNKVEFRNGTTASGALEFTIFTAAQGTYPNIHRRFENGIFADCDGSAEVTVVFK
Ga0310345_100172756F064800AGGMGTAMYDALEDMQAMLKDDWGITDTAGDVPNIDVVWERKVVGLADYTRDTILLTPKRENIDYFGLYGSDFLHHVDIQIDLWSYMNQDRLNNLVKETAKIIKDNIRRTNFVDLLLTGSISSSDTVRNIWKHVLTARYRKVNPT
Ga0310345_100172758F062835N/AMVLKSFEIDWEGKKEMIEYEDDLTFGELENIVNQSVDLSDVAKPKVNIPKYRINILTKVIKKAPFPTNDIVAIRNLKSKVAKGIISEVMKDYPLMRFLEDWMVTFVGTQGQVNLPTESTT
 ⦗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.