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 Ga0228535_1000060

Scaffold Ga0228535_1000060


Overview

Basic Information
Taxon OID3300022181 Open in IMG/M
Scaffold IDGa0228535_1000060 Open in IMG/M
Source Dataset NameEnriched culture of PCE-dechlorinating microbial communities from Ithaca, New York, USA - SJ1
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)317415
Total Scaffold Genes293 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)248 (84.64%)
Novel Protein Genes2 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)2 (100.00%)
Associated Families2

Taxonomy
All Organisms → cellular organisms → Bacteria → Proteobacteria → delta/epsilon subdivisions → Deltaproteobacteria(Source: IMG/M)

Ecosystem & Geography

Source Dataset Ecosystem
Engineered → Modeled → Simulated Communities (Microbial Mixture) → Unclassified → Unclassified → Defined Medium → Enriched Cultures Of Pce-Dechlorinating Microbial Communities From Ithaca, New York, Usa

Source Dataset Sampling Location
Location NameUSA: New York
CoordinatesLat. (o)42.4447Long. (o)-76.485Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F020198Metagenome225Y
F041847Metagenome / Metatranscriptome159Y

Sequences

Protein IDFamilyRBSSequence
Ga0228535_1000060143F020198AGGAGMITIPHRKIKSREATMTYLLDPARLRSFIVDLRAYLRSTQHLFQKKGCENDPRNCKHRGMHDRPEPVLFRRFHHFCYERGFDWEAAREMMELMLSDRFLCECEMVWRLSDDRVEERLAGKRR
Ga0228535_1000060293F041847AGGAMAMNEKKGMHFGKLVVDFANAPAAEEAGVAFIRGAAKAFGYGPEFLAKALDRYPTLERFAKALPADDRELVDLLLEERRLLSVINNLPCNISLSSYDYDGGRTLLFKIQPLEPRWDCENPYEEDDVRISVGAEGKTWLDEVAEMFDDRAPLTEDMDEVKGRLLGCMEEYIRLGDRILAIRRAIPAEKTHEAQKWAAYHSRIEAEQEVLAELLERWRATLGEIVDAGDLSRSQALLDLLVVYNVVNRRELAVGEDGAIYEKPLFGESYFTERAGLADEYYHNVLVYALVEFLKVPGNRRKLRKCRQCGAFFISPPGRPAGTECGRCGRRKGRGTGG
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Institute for Fundamental Biomedical Research
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