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 Ga0222714_10000687

Scaffold Ga0222714_10000687


Overview

Basic Information
Taxon OID3300021961 Open in IMG/M
Scaffold IDGa0222714_10000687 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_3D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)38694
Total Scaffold Genes66 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)56 (84.85%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Duplodnaviria → Heunggongvirae → Uroviricota → Caudoviricetes(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)38.0516Long. (o)-121.88Alt. (m)Depth (m)13
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F004477Metagenome / Metatranscriptome436Y
F022885Metagenome / Metatranscriptome212Y
F037059Metagenome / Metatranscriptome168Y
F078710Metagenome116Y

Sequences

Protein IDFamilyRBSSequence
Ga0222714_1000068732F037059GGAMAQFNTGNNAFQAANKTLFEVNQIATANGSLVTTTNPFPVSGTIITSEEAGALYSFNNHATNINRGWTMDDTMRPVVSFRNGSANTADLIKIVEYEIGNNNANQSTIIYEWYEGDIAISGTTVPAWTTFGVHSQYRVYQDKNSTNPGNTFTPNGAIMRHSGIIIGKNASADEGPADMHGGATPNMLTLCMKRVDSGTKLDVWFAFTIKELI
Ga0222714_1000068745F004477AGAAGMSFFSSPPITSFEQLELEKGKIQLTIMKMAAAVLGSIMVAVVFIFLIGMFMPNELIDNNEIFKIIGPAFSTIVGAFVGAFATMMGMKVTELDTNVKTQELGKTDHKELAEAHKINAEAESIETENEIKMMAAIDKYKDSDEDYGPF
Ga0222714_1000068751F022885AGGAMTELVDNEFGVEYEQISIRKLRIFRVGKQWLVEYQRAPRLWAPWDYFWWYNDGQYVEYYDALGRVNDLKANGYANVPRFMKVKTFEVNDE
Ga0222714_1000068754F078710GAGMSHSSVVKENEDGELYIELSDELMEAMGWDIDTELVWTVYDDGKIGLRKRTDDHSNEA
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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