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 Ga0222717_10001447

Scaffold Ga0222717_10001447


Overview

Basic Information
Taxon OID3300021957 Open in IMG/M
Scaffold IDGa0222717_10001447 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_18D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)19400
Total Scaffold Genes36 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)11 (30.56%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → unclassified viruses → unclassified DNA viruses → unclassified dsDNA viruses → Prokaryotic dsDNA virus sp.(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)37.0966Long. (o)-122.4216Alt. (m)Depth (m)38
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F009330Metagenome / Metatranscriptome319N
F009856Metagenome / Metatranscriptome312Y
F015079Metagenome257Y
F036970Metagenome / Metatranscriptome169Y

Sequences

Protein IDFamilyRBSSequence
Ga0222717_1000144712F036970N/AMTRFREWFTAVNKAIVAQMAIQKKTQRDLAEELGIHPATMNRKLKDPGLFSTGEFGQVVEALDINLQNIESYGSGTN
Ga0222717_1000144713F015079GAGMVQAQIESIQGKGDWKGQHGVMYQFEVSFKDGTVGEANSKTQEPPYKVGDEVYYEVKSDNERWGKKLKISKNPPPPGGFQQFQPKANPNKDKQIIRGMCFKVAGMAWANQYKHKSFELPHEVMVKDVIDLAKKYEQAFNQWMEE
Ga0222717_1000144715F009856GGAMKYWFEVEDAQRWGLPAAAVLAHLKYWIERNTSAGEAPCMTQGIKEMSEYMPFLTASQIKRALSKLEEGEAIYRTSNGFDRRGTFCLGTIPANRRDESEPSMGQKQPIDEPNLARVHIETNTSKRTESTACAYERPTEEEVVEYLTEIGGSDVALQLGQEFHTHYETTGWYVSGSPMAKWKPKARSWLSRLRNKQSNERRKGFNPNNFTPSGLKDFIDNG
Ga0222717_1000144719F009330GGAMTLNRYLSRNYDDLQQAAHRIAGRDGDDLLHEVILQLYQTKQETIDGLLDRGQMKYWVLRVMVNNYNSKTSRYHYKWRKDIERRRKFSNHIEGWWDGDGVAAHRDQLLNHIEERLAGLPWFDAEVFAIYFEEGHTLDSFSEATGISRHTLYTTIRRVRKELQRTGRQDREADQGDGDR
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