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 Ga0334987_0000567

Scaffold Ga0334987_0000567


Overview

Basic Information
Taxon OID3300034061 Open in IMG/M
Scaffold IDGa0334987_0000567 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME02Sep2004-rr0028
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)34415
Total Scaffold Genes107 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)81 (75.70%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lake → Unclassified → Freshwater → Freshwater Microbial Communities From Lake Mendota, Crystal Bog Lake, And Trout Bog Lake In Wisconsin, United States

Source Dataset Sampling Location
Location NameUSA: Wisconsin
CoordinatesLat. (o)43.0995Long. (o)-89.4045Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F007305Metagenome / Metatranscriptome353Y
F042870Metagenome / Metatranscriptome157Y
F043902Metagenome / Metatranscriptome155Y
F093303Metagenome106Y

Sequences

Protein IDFamilyRBSSequence
Ga0334987_0000567_11283_11399F042870GAGMNELPDSKIPWWDNHYEDVYSEELEDGYPYDMGTKIQE
Ga0334987_0000567_11581_11736F093303AGGAGGMTENEKFVIFWLYNTVAKRMPDNPYGSNDILVNGINVTETVRKLLQDRLFV
Ga0334987_0000567_13342_13653F043902GGAGMTIQQLRNDGYKVRVLHNRLYNGYYKWQVGSKPSGDHGYGPIDPDTKGGSTQIVIDSPSGDHYEGLAICSKKENYNKKLGVRIALGRCKIKQPAYIPVEVEND
Ga0334987_0000567_3262_3714F007305N/AMKIIHKTIKKAYENWNPNSLVRCYHYCSAFDGTRMIEFAQNNPIKMSTKAFRIGKRFNIPKYLEYPYVHSESHLISKLLDRYNSIDPNWSICVLRINRQGLILGSKPCVNCSKLLNAVGLNNIYYSDDEGNFVCPTKTIKIEPLVDISYV
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