NMPFamsDB

NMPFamsDB

NMPFamsDB

A database of Novel Metagenome Protein Families

A database of Novel Metagenome Protein Clusters

A database of Novel Metagenome Protein Clusters
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Scaffold Ga0222717_10006887

Scaffold Ga0222717_10006887


Overview

Basic Information
Taxon OID3300021957 Open in IMG/M
Scaffold IDGa0222717_10006887 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)8108
Total Scaffold Genes22 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)20 (90.91%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F024776Metagenome204N
F053261Metagenome141N
F053304Metagenome141N
F068782Metagenome124N

Sequences

Protein IDFamilyRBSSequence
Ga0222717_100068871F068782GGAGGMQYQVIPVRRELIPLMFVDDVTIGKPYDVVNSKTTNGGYFIGGNVTLNSGATYYIEPELHANGFVVKRVYVEDADETDPVLRAWGDYTDVSVFDRKDRPLFDWVLTWLLNTTADSDTFKSRFRLLSMQPMRSQIAEGKVSIYQSLKDMHNDRQIAMKPGRAFSFMFPEFEHKQ
Ga0222717_100068872F053261AGGAMTRTVYTPELKAEILAFYAENSAKDTAAKFGKSEKAISLLAYRNEFTKGTRHSTSKYSLSFRHEVCQYYEHHTGVETFAKFSINNSCLYQWRKDLGYRNKHRGYNLHTELTAPKAVRKNYRIVKAENGDLKARNMNLQGQVEDLKEQNRAQSQRIESFVQAIGGLLQQ
Ga0222717_100068873F053304GGAGGMIKVKVFVHDVFLCTIPEDKVESMFAYLRRKGITNVTISE
Ga0222717_100068876F024776AGGAMIEILNGVTWQLVDENREPVYGGDRIVDFRGNASVITSAEPPRHAASTGRVNNFFPSVFDLKWVEVCDVNS
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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