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 Ga0334979_0004266

Scaffold Ga0334979_0004266


Overview

Basic Information
Taxon OID3300033996 Open in IMG/M
Scaffold IDGa0334979_0004266 Open in IMG/M
Source Dataset NameFreshwater microbial communities from Lake Mendota, Madison, Wisconsin, United States - TYMEFLIES-ME20Jul2016-rr0004
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10164
Total Scaffold Genes22 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (36.36%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (50.00%)
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?
F016966Metagenome / Metatranscriptome243Y
F036665Metagenome / Metatranscriptome169N
F038202Metagenome / Metatranscriptome166N
F040100Metagenome / Metatranscriptome162N

Sequences

Protein IDFamilyRBSSequence
Ga0334979_0004266_3724_3939F038202AGGAMNIESSMKVKVTGIVYDTDIDDDSSQFVLNSDLPSEMIVEVDGIIDVESEIADAISDKTGWCVQGFNYEIL
Ga0334979_0004266_6009_6215F040100N/AMNTDLTQLFKTITESVPHYLMFMGLVFLAYTLTIATIKVISDNVVKVVLAARAPVAFKIKDGSDDENT
Ga0334979_0004266_8252_8515F016966N/AMKNVTFTRVKNQSLPNLYSGTINGEIVGFIYKPTDTKTDKNAWRSYVGVGDKAKFLYHTWDMNDAMEAVELAVDTQYAGDWPSSVVK
Ga0334979_0004266_8905_9123F036665GAGMSTMNNKSWKPEVLVEGKWATNGLRFATQTEAFESAMQTRMRWWLVDDVRAAESEDAVNYRMTEGKLVAVSN
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