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 Ga0335003_0000643

Scaffold Ga0335003_0000643


Overview

Basic Information
Taxon OID3300033995 Open in IMG/M
Scaffold IDGa0335003_0000643 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME23May2014-rr0056
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)16819
Total Scaffold Genes37 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)1 (2.70%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (16.67%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: UniRef50)

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?
F000716Metagenome / Metatranscriptome923Y
F010462Metagenome / Metatranscriptome303Y
F021963Metagenome / Metatranscriptome216Y
F028489Metagenome / Metatranscriptome191Y
F048248Metagenome / Metatranscriptome148Y
F074450Metagenome / Metatranscriptome119Y

Sequences

Protein IDFamilyRBSSequence
Ga0335003_0000643_11048_11467F048248N/AMNISVTYDDTDVAKALGKIIKDPNAEEFIKLITPMICTSSYATEYFFKLMLGNKLFNVIPNGTLCKIPVNNLGYGSNKDAIRQKFADEDDKVVVIVKEFRGYHEYSQYHIEYTSVLDNGVTKKDTTYVQHKDLEVIEEF
Ga0335003_0000643_11619_11900F010462N/AMPVMQYQLPNGKVVHLSIEEYLDLTDEDVQYLMSIDYGEHVRDPFTGSAVENNSKEKYYDFEFLSQDDEILNDICSDDLPFDDIIDLSDNLDL
Ga0335003_0000643_12543_13031F000716N/AMIKMEKLKQQIKDYQLYAGKTYIEYEQDKYSAYQNYLYKRALYGLDAIEQKELVTMCSKKKQRIINVYKRAQSILNIAKQKATIHYTNLLFKTFFPKSPFTQLLLGETETDEKFKNTLTFKDLNISKDDIINIFITEGVLPKNFLSLDKDPNQLPRLKNEKL
Ga0335003_0000643_13810_13986F021963GAGMVKVNGCGHGATDVHHTHSGVNRDAFYLVQSTWLSVCRNCHNWIHLNPAEARILKHLK
Ga0335003_0000643_14008_14745F028489N/AMKTIGKELKVKHTIEYSKFAILPMNRGIDSKHVQKMITSVRKIGVIRAVITTTTNIIEGDKKTYIIDGQHLATALEREGAPIPYIEIDITSEEELIEKMAYLNNSSKSWDLMNYINAWKMIRPDYMKLFKWKNMYDIEVSMLACIATNMPSIRYGTQPIKNGSFTISNSKAEDMCKAFNDIFLKIGMADRGVKFQFLNAFMVAYGTYNHTKVLANIDKHLKTVKLMANGDETGVYIRKQIFNLPK
Ga0335003_0000643_16372_16809F074450N/AMEDYTKDDVIKALSQIPVNSRKRVLVDQRSYLMGLLVYRFMMTEHAIANIVGIKRDKVHYNKKLALQLCTDKSYMQNVYVYAQMFPFDFSVIEATSSVHRLKTVELVLDKKFFNKLKATGSVLGHNDIRTTIKFLLEKSMKLWEE

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