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 Ga0193707_1001551

Scaffold Ga0193707_1001551


Overview

Basic Information
Taxon OID3300019881 Open in IMG/M
Scaffold IDGa0193707_1001551 Open in IMG/M
Source Dataset NameSoil microbial communities from a riparian zone of the East river system, Colorado, United States ? U3c2
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)8352
Total Scaffold Genes12 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (66.67%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Terrestrial → Soil → Unclassified → Unclassified → Soil → Soil And Sediment Microbial Communities From The East River, Co, Usa

Source Dataset Sampling Location
Location NameUSA: East River, Colorado
CoordinatesLat. (o)38.9206Long. (o)-106.9514Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F006999Metagenome / Metatranscriptome360Y
F015372Metagenome255Y
F040281Metagenome / Metatranscriptome162Y
F046047Metagenome / Metatranscriptome152Y

Sequences

Protein IDFamilyRBSSequence
Ga0193707_100155111F040281GAGGLAGVANQRSVRTILLAATAFAALTGCQSAAEKQHPEAEVQSGDLSNCARIRVVSSGCGGNSSFTEVYVDNMHKDRAVRATVRKHSQQGDDDTEYAIAEAGQLFIGCGGVGTTFDVVGCKMLKGKAEKR
Ga0193707_10015514F015372AGGMDDIQKRADDKGWDEKQDRWISDANRRIEDGLSGEALAALHGLHVSPDDEPPYDVDEMSDVDDEETLRDKIIRRLIQIGDTFSGNRDLPDDVRQRWTATLQECYPSDVKSVTLLRDLRREVDRWEEIEPQSALSLVYGAIGGSGDNDRDLSTKV
Ga0193707_10015517F046047GGAGGMNGKFLLFGRDEIKNSLMGFVDRKIGEQRRDERRLAEQRTTKHRFQARKSCVADARSYRVARRLPVLAVALFDRATTNSRQAAQ
Ga0193707_10015519F006999GGCGGMPIMKRLALLGLVILMPALLRADEKETMLQALGQFEQACRSTTPCEVSSNACQTREIWLAQQAAQAADRYLTTPDAKESNWRLVAQSIIKYSQARSEAYAAYVRARNQDPDAAEKAYHSIVDPLEQDFTGQLKATLKSDENSSEIAQRFGLVDF
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Institute for Fundamental Biomedical Research
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