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 Ga0335030_0000101

Scaffold Ga0335030_0000101


Overview

Basic Information
Taxon OID3300034103 Open in IMG/M
Scaffold IDGa0335030_0000101 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME27Sep2002-rr0119
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)100421
Total Scaffold Genes132 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)92 (69.70%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Associated Families5

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
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000264Metagenome / Metatranscriptome1424Y
F010302Metagenome / Metatranscriptome305N
F017265Metagenome / Metatranscriptome241N
F018928Metagenome / Metatranscriptome232Y
F041188Metagenome / Metatranscriptome160N

Sequences

Protein IDFamilyRBSSequence
Ga0335030_0000101_34117_34473F041188AGGAGMSLTIEELSTKTVMALKAYAKKNNIELFEANTKLEILEILASWIPPEKTEERVEEANKVENLTNKIALYSDKNLHMDNLGALKVGYNIVSKEASEKWLTHRLVRIASPEEVASYYRKD
Ga0335030_0000101_35962_36600F017265AGGMNNIVNYSLGFLEGIDRGKKIFLDNLGLGIIQSLSQYIDVQARANPKALHHVYEWNQTGSPSARLFDLRYTVSNLGLSVNSTFKQSRSISENMTIPFYNKAKIMENGIPVTISPTKSKVLKFNGPSGEVFTSRPIKVENPGGDAVYKGFESAFDEFMMRYFKQSFLRASGLYDYIKKPSLYKKNFKAGSKIGKSKGVDTGFKWITNATIGVE
Ga0335030_0000101_4074_4649F010302N/AMVDVLLNTENIVVLGPPETIDVLVDIGPQGTRGSKIIVGSGEPNSQTNNGVILGQTLILNDMYINIAPGENYSYMYQYTSQPGGNAWVQVLKINPAIYSAIEIIEFVSGAGSITIPILDIVNVTGSPLTASNFNIQFKIEGTSPIAASMEIPALAGAGTNLVINFDAVQYSGGSWSALTGNKNVHLFISIV
Ga0335030_0000101_64812_64967F000264GGAGMAGKLYTSEIWLRKRYLIDKKSPQDIAKECGASIETVYVYLAKFGLRKSKR
Ga0335030_0000101_84964_85173F018928AGGAGMIIKSLNTMEKIVSKNKNLIWSGWDVIDLKESDIAKTSPQGIRIKDKWYLHRIYKPSRNGWDIPNKYKD
 ⦗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.