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 Ga0222714_10003418

Scaffold Ga0222714_10003418


Overview

Basic Information
Taxon OID3300021961 Open in IMG/M
Scaffold IDGa0222714_10003418 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_3D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)16176
Total Scaffold Genes22 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)15 (68.18%)
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 → Armatimonadetes → Armatimonadia → Capsulimonadales → Capsulimonadaceae → Capsulimonas → Capsulimonas corticalis(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)38.0516Long. (o)-121.88Alt. (m)Depth (m)13
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005589Metagenome395Y
F085717Metagenome111N
F101175Metagenome102Y
F103262Metagenome101N

Sequences

Protein IDFamilyRBSSequence
Ga0222714_1000341810F103262GAGGMSFDKNQFLWNFIYTCMSKNITFSDIDYYNFSKACNIKVDMNFAMENFFNNGVQKVAQGNKTVFVSSKSLLGPCYIHPQGTNPKSVNYNISKIIQELQLSKQKITSAEKLKKITDYIELL
Ga0222714_1000341815F005589GGAMGRYKHSFWRYIPSTDERQSFFKFVESFETDSDAVPKFDDHYCVDHIYDTLNGQMRVKNHSAPDYCVSKYVGINLHLPPVEKTNKQDIYVVIHRSSFSHKKIEFDEFLEPKDKRYTQEEWEFLLSLIEKKFNRQKEWAKDGIKIPSQYDDGTKVFRTEEEFRAFSLGRRAYFLYHIVRNYNFIHLVRRLNIGYTSEK
Ga0222714_1000341819F101175GGAGMNGKEAIIYLQAGYTLRRKEWEPDLKCRAYFSDDMWSIRIDINDPILGALDTHLVPQWVPDKPEFANYVCFNDVLDSGDLLEDDWEIVE
Ga0222714_100034186F085717GGAMNRFYDEFDGYNNRKHRESLSKKNKYQEEEDLDDLDIIADDISEKFMGSYGIHNITPSKAKSAVVVYVDELSDITESVRKEIEDMAKPYSAIIKTSKLKKDNQHLEKYFKN
 ⦗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.