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 Ga0070743_10001151

Scaffold Ga0070743_10001151


Overview

Basic Information
Taxon OID3300005941 Open in IMG/M
Scaffold IDGa0070743_10001151 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary, USA - metaG S.697
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10113
Total Scaffold Genes29 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)28 (96.55%)
Novel Protein Genes11 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)11 (100.00%)
Associated Families11

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameUSA: Columbia River Estuary
CoordinatesLat. (o)46.234Long. (o)-123.9135Alt. (m)Depth (m)
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000263Metagenome / Metatranscriptome1424Y
F000311Metagenome / Metatranscriptome1326Y
F000441Metagenome / Metatranscriptome1136Y
F000852Metagenome / Metatranscriptome860Y
F001125Metagenome / Metatranscriptome769Y
F005741Metagenome / Metatranscriptome391Y
F007263Metagenome / Metatranscriptome354Y
F017134Metagenome / Metatranscriptome242Y
F023344Metagenome / Metatranscriptome210Y
F053291Metagenome / Metatranscriptome141N
F063705Metagenome / Metatranscriptome129Y

Sequences

Protein IDFamilyRBSSequence
Ga0070743_1000115112F005741AGGMKNRFRVEIYDANKLNDLTIYSDSGVDKEYLTELVISNIKQFSGRVNAYAYDAQKKKKITAMFFDEDTVHKLKSKIQSAARISFKLE*
Ga0070743_1000115116F000311GAGMYFELTAPTQVAFARATWEAELLGLDPEQCGPLTFNIGTGSIEKVSRIRDKYNLTESYWSDREATGYKEK*
Ga0070743_1000115119F001125GGCGGMGNRANFGFRDSKGETLYLYGHWAGSEMLHHLATAVAKAEPRWTDEAYATRICISQLVAQEWESETGWGLYINHIGDNEHKVPVIDWSKKTFTLYEEDLSQVVFSLPIDKFVDKYSRLVMV*
Ga0070743_100011512F007263AGGMIKNYLDENEFYFIKDEMKFHCDESQFIYVCKAHGEQMGCYFCEFDYSKECECEA*
Ga0070743_1000115121F023344AGGCGGMEAFTDTVGEHILGAIQVDIEQHLFEQWNSKNLDEGSDYAEWQFMSFAPDNLKQSYNEYYGYIEGDEYCL*
Ga0070743_1000115122F053291GGAGMITTQELINYIYDDNLIHFDDRDTSDDCDCHIHITLNTMVKYMEAIEC*
Ga0070743_1000115124F063705GGAGGLTKSSQFLEYMKIHLISLNQDLEDARNNEPLNEDEYWESDSFYMGAIDATEHLLSVATDIMNSTSERYE*
Ga0070743_1000115125F000263AGGMNAEDIGLPPHLQRMVNAGVSGLDIMHGELKNLMFIAEQELSDAQAIEDESEEAMDSMARTEATGRLDALVELYQLTYQLSFAIGEAYDRELKAGMK*
Ga0070743_1000115127F000441GAGGMKMSDRYVNDQLDKAQKLLWGGSETENIEAHNIIAKLIKDRIEQTNLT*
Ga0070743_1000115128F000852AGGAMTTKREYLKAQGITVGVRGRFSGAAKVALQEAATKGIVFTAEPVNKAK*
Ga0070743_100011516F017134GGAGMEQFTVACLNYEICGAQEIFYSDEDYEVYGDDYTCAECYASEEMEFYELTGWADSDALASAGHGMDEDY*
 ⦗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.