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_0000243

Scaffold Ga0335003_0000243


Overview

Basic Information
Taxon OID3300033995 Open in IMG/M
Scaffold IDGa0335003_0000243 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)27826
Total Scaffold Genes66 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (6.06%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

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
F012010Metagenome / Metatranscriptome284Y
F048248Metagenome / Metatranscriptome148Y
F074450Metagenome / Metatranscriptome119Y

Sequences

Protein IDFamilyRBSSequence
Ga0335003_0000243_12056_12475F048248AGAAGMNISVNYDDTDVAKALSKIIKDPNSEEFVKLITPMICSSAQACNQFFKLMLGNKLPDVMPVGTLCKLEVSQLGYGSNKDEIRAKYADADDKIVVKVKEFRGYHEYSDYEVTYNNIKPNGDINIESTYTSTRQLDIIEEI
Ga0335003_0000243_13550_14074F000716N/AMYMIMEKQNTKQKFEYSGNLENYQLINQRPTVMQYETDCYSQYQNYLYKRALYGLEALSPQEMSAMCSKKKQRVINVYKRAQVVLNKFKQQVTIQYTNVFFKTLFPNSPITDFLLSEVETDEKFKNTLTFKDLNISKEQIIGIFMSEGILPKNFLSLERDPNHLPRLKNEVKSM
Ga0335003_0000243_17895_18329F074450N/AMEDYTKDDVITALSKILMNSRQRVLVDQRSYLMGLLAFRFMMTEHAIAKATGIKRDKVNYNKKLVLQFCKDKSYIQNVYVYAQMFPFDFNVIDSSRPNRLKRVELDLDQKFFNKLKATGSILGHDDIRITIKFLLEKSMKLWEE
Ga0335003_0000243_25888_26478F012010N/AMEEIFNRLIKEDLSPNTYYVLHCIKEKIVPNQFVNAALESKRLQKDNWINDDLQLTAKSHIFMEEINSFFRKSKKKTSRDLMGDEFSQKILEYVNIFPNKKLSSGKYARVNPKNLESTFRWFFETYDYDWETIISATERYVDEYSLKNYEFMRTAQYFVRKQNMDKSFDSDLATYCDLKKSGYDDDNYDAFKELVV

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