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 Ga0222712_10000709

Scaffold Ga0222712_10000709


Overview

Basic Information
Taxon OID3300021963 Open in IMG/M
Scaffold IDGa0222712_10000709 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_657D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)42566
Total Scaffold Genes63 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)35 (55.56%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (60.00%)
Associated Families5

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)38.1516Long. (o)-121.6883Alt. (m)Depth (m)10
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F001841Metagenome / Metatranscriptome627Y
F002317Metagenome / Metatranscriptome571Y
F009141Metagenome / Metatranscriptome322Y
F021513Metagenome / Metatranscriptome218Y
F022190Metagenome / Metatranscriptome215Y

Sequences

Protein IDFamilyRBSSequence
Ga0222712_1000070910F022190AGGAGGMSQVQSIEELRFEGDHLVVDAVVDDMVLVYAQTQLDPPEWGPALCRGTLYFSDEDLIPATDAELRAMLTDRVDDWTPLDTSDWDD
Ga0222712_1000070913F001841GGAGVAKPEPPQPKRPRKPILGYTVGDIPFELLAVIRVSWYRKGMAYEVEEYQIEESDDAQKQFHYIVGTALKQGADVCVLTQYEPEALGVQQ
Ga0222712_1000070952F002317N/AMEHHEDVRAAPEPPNPINQAVPALLATAVIGLGGLFIQVAKLDQSVNTVAADIQELKNDSKERLSDLENRVRHIEMQIGPKP
Ga0222712_100007096F021513N/AMNMYILSEAQFDQITKAVEAAHFALLTCQRIDLDLTSPKQTIPLPAGEKIVRTSDVRKPKSQSKTRKSSRKGQRGVAVLTEAKVLEIKRQLAAGGKSVAKIAREFGVHSTTINCIKWGKTWKTVQLQQPAPVVVAD
Ga0222712_100007097F009141GGAGGMVYLDKLSELSDSELNMLNIETMASLEEARRDYEAIENKQSEEGGSVYRRLKVAGYFQAAIKLELQN
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