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 Ga0208926_1000223

Scaffold Ga0208926_1000223


Overview

Basic Information
Taxon OID3300027205 Open in IMG/M
Scaffold IDGa0208926_1000223 Open in IMG/M
Source Dataset NameEstuarine microbial communities from the Columbia River estuary - metaG 1449B-3 (SPAdes)
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)10966
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)7 (43.75%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (20.00%)
Associated Families5

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes(Source: UniRef50)

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Intertidal Zone → Estuary → Estuarine → Estuarine Microbial Communities From The Columbia River Estuary, To Analyze Effect Of Nutrient Fluxes, A Time Series

Source Dataset Sampling Location
Location NameColumbia River Estuary, USA
CoordinatesLat. (o)46.2327Long. (o)-123.9168Alt. (m)Depth (m)
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005633Metagenome / Metatranscriptome394Y
F009603Metagenome / Metatranscriptome315N
F017997Metagenome / Metatranscriptome237Y
F031459Metagenome / Metatranscriptome182N
F061802Metagenome131N

Sequences

Protein IDFamilyRBSSequence
Ga0208926_100022310F005633N/AMRIATTVAVDKNGKSKLVSGPDIDASLQRDNFNTVSVPEGGKLVLWIQGALAPKVRKG
Ga0208926_100022313F009603N/AMKRSYLRTTYAGKAALSLLEALTAKLSVAAGAIESGQVVRSTSSSDVSVEFAEPGKGSAAPVEMLEMWESLLSDYDLAVTLLAGDGITSPSDLQIYNKMLGTILVAVTSYYGDFTQFRREATTRMS
Ga0208926_100022315F061802N/AMEILNCQKPRGLEALRQNKIALKAIERDTVLRFLPIADDKPSRIDGFIWNQNSGVITGSYEVKSRNYGLAKLESTYGNQWMISWSKLHAALEITKHCKIPFWGILHLEPDGLVLMVEIFNETATWGCNVQLRDKLMDGVNERMAFLNMSEARKHRIEELNTELF
Ga0208926_10002232F017997AGAAGVNIIEQIVTALLKWLTGLAKTQPTVEDAKPDKELKAKLLDRINHAGR
Ga0208926_10002234F031459N/AMQTDTNSNSGVGISLATAAAAGAVSLIPQLTQWFQLGAAVLAFIAAAIGLWKALKK
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Institute for Fundamental Biomedical Research
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