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 JGI25930J51415_1002350

Scaffold JGI25930J51415_1002350


Overview

Basic Information
Taxon OID3300003499 Open in IMG/M
Scaffold IDJGI25930J51415_1002350 Open in IMG/M
Source Dataset NameFreshwater lake microbial communities from Lake Michigan, USA - Fa13.BD.MLB.DN
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4251
Total Scaffold Genes9 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (33.33%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
Associated Families4

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Epsilonproteobacteria → Campylobacterales → Campylobacteraceae → Campylobacter → Campylobacter coli(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Freshwater → Lentic → Unclassified → Freshwater Lake → Freshwater Lake Microbial Communities From The Great Lakes, Usa, Analyzing Microbial Food Webs And Carbon Cycling

Source Dataset Sampling Location
Location NameLake Michigan, USA
CoordinatesLat. (o)43.1998Long. (o)-86.5698Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F013634Metagenome / Metatranscriptome269Y
F025485Metagenome / Metatranscriptome201Y
F031456Metagenome / Metatranscriptome182Y
F051709Metagenome143Y

Sequences

Protein IDFamilyRBSSequence
JGI25930J51415_10023501F031456N/AMALIGSFPASSSAVFNLDFLPEYLLIQDAAASSQALSSFSVVVSGLQLMSITDIQRITALAKFDSGAILTAPSTPGTITSRTASYLKLATGRINKATTITGVNSLPSVRNVYAASSNINNVGRRAVEQSINPSANATFDNFESLIFNPTNVLRAQITFANGFSDEFSPAELQAFYAKYHVTDEAGNLNGLTCIDSDSGGGLISQVVLYNGSGGSTVVLKSDYVQL*
JGI25930J51415_10023502F013634AGGAMAIQIAPLVGAGLGALQQSKIQKAQEGTKTFTKPKTIFGKLIGGVSGRTAAAEASDMYKSEPTSAKVMNALAPSQKQSTPITGGFSFGQEAKTKPYLPYIIVAGIVGIFYLMRRRGGRRRR*
JGI25930J51415_10023504F025485N/AMENARKFLPLIIGGIVAVAVFFISRKVRQGSGNNQERAEILEKAREAKLAKSILKKSNDEESTSDIG*
JGI25930J51415_10023508F051709N/AMIPNKERLGIEVAIRPHVATIDVIKSELQKVNGSIERKWRHLDDFSASWSYTIWSNWKDAMNGELSYREYLLIVLEAYQK*
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