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 Ga0233356_1000004

Scaffold Ga0233356_1000004


Overview

Basic Information
Taxon OID3300023046 Open in IMG/M
Scaffold IDGa0233356_1000004 Open in IMG/M
Source Dataset NameSoil microbial communities from Shasta-Trinity National Forest, California, United States - GEON-SFM-MS
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)124639
Total Scaffold Genes123 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)68 (55.28%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (100.00%)
Associated Families3

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Forest Soil → Soil → Soil And Plant Litter Microbial Communities From Temperate Forests In California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)40.282Long. (o)-123.2869Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F002548Metagenome / Metatranscriptome549Y
F013826Metagenome / Metatranscriptome268Y
F022212Metagenome215Y

Sequences

Protein IDFamilyRBSSequence
Ga0233356_1000004107F002548GAGMGKYAMDSTMEVRSPIFERRRLRRIRMIVELTLNLVGTDATVSHHEARCLVRCARKAILELHPGFEQRYERIVRPYFERVLASRWPHEQALDDDCCDVVN
Ga0233356_1000004110F022212GGAGMRRFLILVALAAVSCGGGSSDATDNSSEWLHVLRHKQAASAPNAPVHAKQVYADTLGAFVAKHPTHSRAREVYQHIQLDFAHELAVVGRHQDAIRIYRAVLTHDPRNEAALKGLADSVDHLAVSQEKLLALEKGMSQRDVAHLLGKPIPGWTVTNDRPDSTIESWYYRRTGGGIAGVYFRDGVLFAAEENSQAKIAPLMRQ
Ga0233356_100000480F013826AGGAGGMAVCWRCPNCSEVSCEDDVNATGNPVACDHCERPFPQQETLCTVCDTPNPWSRRDTLHFLCRECGTAQTYFSHLPMAG
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