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_10003639

Scaffold Ga0222712_10003639


Overview

Basic Information
Taxon OID3300021963 Open in IMG/M
Scaffold IDGa0222712_10003639 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)16624
Total Scaffold Genes29 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)19 (65.52%)
Novel Protein Genes6 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (50.00%)
Associated Families6

Taxonomy
All Organisms → cellular organisms → Bacteria(Source: IMG/M)

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?
F001424Metagenome / Metatranscriptome698Y
F003662Metagenome / Metatranscriptome474Y
F011843Metagenome286Y
F021490Metagenome / Metatranscriptome218Y
F026878Metagenome196N
F035676Metagenome171Y

Sequences

Protein IDFamilyRBSSequence
Ga0222712_1000363922F021490N/AVLDRQGDGPELKASEDDQMTDLLTALHLSVMLLDLKIRMMEAIEEEVFDLAMTYHLLILVRTDELDAHRWAMSPKAWAIYETIHP
Ga0222712_1000363923F035676GGAMSWELQSGQKLSGKKMKSNFVNNHVRLNGNVHGHKLQLCNKCNRQKPPEGGVEMSATKWVCASCWTDRVTGQNLKQARMTK
Ga0222712_1000363924F011843GGAMNITLLTKVRQLFNVDYVPISTNRHNQRQYIKALRILGDKWLTHPHNKVQRIQ
Ga0222712_1000363925F003662N/AMKTKQATVVLKGQEWIVLDTDEAQDKKVFCKLMSLDGTIVWHTWVDINQIVGII
Ga0222712_1000363928F001424GGAGGMVQQVEQLSTGYPHLWDERVFCHECKHSCMVEQRQSMPAEQMERHRKVNAKPLQWMFDQAKVKGGWATVTWSEHQCGQTGLAAFPTDVKHRCHLFQAKPSAVESESWWLT
Ga0222712_1000363929F026878N/ATIYIQLDTPVCIITHTNKTISKSDSDATARGASAFTGDATLTGILFEDETKTRYMRLVKTRYQPNFREIKFQSDVFADTVLDEDGDIQEQMVLLVVPAMSSEEDRRQAANDRQNDKKQQQVQDACDAACNFVQSIINAKGAVIMRRGSGRPSVPKEMAAMHQLEWADIYQVVPMADQSYSRRAVGAAIFQRFCQDQSGTGWVQLK
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