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 Ga0222712_10002486

Scaffold Ga0222712_10002486


Overview

Basic Information
Taxon OID3300021963 Open in IMG/M
Scaffold IDGa0222712_10002486 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_657D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)21068
Total Scaffold Genes28 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)19 (67.86%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

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

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Marine → Unclassified → Unclassified → Estuarine Water → Estuarine Microbial Communities From The San Francisco Bay-Delta (Sfbd), California, United States

Source Dataset Sampling Location
Location NameUSA: California
CoordinatesLat. (o)38.1516Long. (o)-121.6883Alt. (m)Depth (m)10
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000635Metagenome / Metatranscriptome970Y
F003112Metagenome / Metatranscriptome506N
F030376Metagenome / Metatranscriptome185N
F081071Metagenome / Metatranscriptome114Y

Sequences

Protein IDFamilyRBSSequence
Ga0222712_1000248615F000635AGGAGMTLSEIAQYAGEKVGKTDSETLTFLQKAASLAYRRVWNFAPWRETVTSSTYSVGTNRTITLGTNVETPLSVSYDQSEVEPIDLATIISQDADLLEDTRTGTPVLYHFTGRNTSGVAQLDLYPRLETAGTISLRVVEKLKCLTRTNIIVDFPPTTQALDDELRLPHVHQVVLSLTHADALERERQYAKAQSVVQTANADLAAMANYELSQVGGIKQITPSSLGDLTTEEITAS
Ga0222712_1000248617F081071AGAAGVTAVEFIEASGVPESTWPTFREWFNWHSERGLVGVAKYGDEVAGVAIARCIKGMEAPEPYEHDEAGESVFVDLTVTSIDGKSNALSRKALKCLLSILWDRFGPRRRITFKRNGTYKEYDYYNFMRKALN
Ga0222712_1000248623F030376N/AMKAILFLMAVLVAPVMGEDDSDDFAGAVIKKNGFSSGRGCVISEDGGMVYSSSSGRSIISTDGFYYKSGKSFVGKDGTFISKSGNFFYGTSATIKAGSAYMNKGAVFVGSSKDKD
Ga0222712_100024869F003112GGAGGMWKTLAIWLTNLSLRFLMTQKEYACFREALRFAGENNTVARETKYIGKVKHLLSVNRSIKRIVEEGRDRDEIVDAVVHLAVALKYLEGRGRES

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