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 Ga0222717_10002217

Scaffold Ga0222717_10002217


Overview

Basic Information
Taxon OID3300021957 Open in IMG/M
Scaffold IDGa0222717_10002217 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_18D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)15228
Total Scaffold Genes30 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)27 (90.00%)
Novel Protein Genes7 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)7 (100.00%)
Associated Families7

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)37.0966Long. (o)-122.4216Alt. (m)Depth (m)38
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006728Metagenome / Metatranscriptome366Y
F008114Metagenome339Y
F008731Metagenome / Metatranscriptome329Y
F008816Metagenome / Metatranscriptome327N
F033044Metagenome / Metatranscriptome178N
F051861Metagenome143N
F073418Metagenome / Metatranscriptome120N

Sequences

Protein IDFamilyRBSSequence
Ga0222717_1000221711F051861AGGAGMIIEDQTVEVKVWDHNDAVIFVYESVYEKTGEVHESGHDVWRSYKQVVTAIPVDFTYDENLSDDDKLQKVRNAADALSQLYSHAGDYEMGVSYYINHDQYINPEDPDLPYVS
Ga0222717_100022172F008731AGGAGMFVLFATKPLNDGTQGFRFNFAGLKGLTRKRKHASRGYKVTRNDCMNAVHLGKRTVYIERKPNRNTERKLCHFAG
Ga0222717_1000221722F008816GGAGMLFYTVLVLSYTLNGDYLQSNIIFPSARACGDALPAYYEPVYAIDRDAIGQCLKTEVMSASIKPKRRPL
Ga0222717_1000221728F033044AGGAMAKYTMDMVLEYAKIFPENADMGSPDGPRAAQAIHQKGGQYIVNAYFTDEDQIEKLVAEGLDLTPMNSQRVLQGNAEFGIGKYMKVKRMVSDVKTFSDKKTGEPVNVDYGGAPTVVDLTQGKENKRLWSFSEDGAIGNGTKAKVQFETYASGAGVRLMNVGITEHVAYETNSAPTEDDELFMVG
Ga0222717_100022173F006728AGGMTKIDFNNIVVRHNGRTISIAQHWSRTSEGDFLNAQEIADVGELYHDDYDPIRFDDTVDGLINALQAIKKEIEQ
Ga0222717_100022174F073418AGAAGGMTFDKQKLRQIREAMQEALENAGIYDVTIKVGNCSYSGGEATYKVQVLLDGAETQEQSSLSQMASLIGLDTSKIAKISGQAVTLIGYNSKARKMPWQVRSLTGHDQWKLTDDQAKRMFGKVDA
Ga0222717_100022176F008114AGGAMKLTINTKAFPDADPGMLQEMLGVLPYWVGEYILLGRDMDIVGFMTERYGFGSLYEFKGSVSDDGTYSYPEDPDLPYVGKMNTPNGNVYFYQYAMLALPLPNGEYFITRMD
 ⦗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.