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 Ga0222718_10024270

Scaffold Ga0222718_10024270


Overview

Basic Information
Taxon OID3300021958 Open in IMG/M
Scaffold IDGa0222718_10024270 Open in IMG/M
Source Dataset NameEstuarine water microbial communities from San Francisco Bay, California, United States - C33_27D
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)4152
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)8 (80.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)4 (100.00%)
Associated Families4

Taxonomy
All Organisms → Viruses → Predicted Viral(Source: DeepVirFinder)

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)37.6183Long. (o)-122.2916Alt. (m)Depth (m)12
Location on Map
Zoom:    Powered by OpenStreetMap ©

Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F005847Metagenome388Y
F010614Metagenome301Y
F013407Metagenome271N
F043911Metagenome155N

Sequences

Protein IDFamilyRBSSequence
Ga0222718_100242701F013407AGGMSGPITRHHWDALAADIYARGGYRNYGIDPMSILAMLNTIVPQVLQWVADCRRLRDDEVQPAVAAMHARNPAQAKRRTAAQCKKLRRKQGEQFCKEFNVPRGDRRAILQADFTLTDDQATAMAEDMIDECCNRSAEDVAR
Ga0222718_100242704F005847GAGGMAKTEPRGRIPQLYREMQIGDRVVVNIERRRAFHLLRSAWVRHYRQQTIADGYAVPWLYLEPVGESRTLVVRMRDEAQVRAARAAFLAKGNR
Ga0222718_100242705F043911AGGGGGLSGEPYVVYRLDTYGRRQYVFRQLSPVDCRAPIHRKGIAAQGWVNSLPKAKMYTGKAAADAAAKAIADATRHGLDAMRVISLEQAQRERAAALQQRGR
Ga0222718_100242709F010614AGGMNDGETREQWARLCRMYITRGHAHIDQMVSKLHTMAGIREGFEDADAWRAMQDRAIKDLEAQRPNSPEYAWALLRVLGVQLWMVRALEVMEEGADE
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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