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 Ga0102945_1001566

Scaffold Ga0102945_1001566


Overview

Basic Information
Taxon OID3300007609 Open in IMG/M
Scaffold IDGa0102945_1001566 Open in IMG/M
Source Dataset NameSalt pond water microbial communities from South San Francisco under conditions of wetland restoration - Salt Pond MetaG R2_restored_H2O_MG
Source Dataset CategoryMetagenome
Source Dataset Use PolicyOpen
Sequencing CenterDOE Joint Genome Institute (JGI)
Sequencing StatusPermanent Draft

Scaffold Components
Scaffold Length (bps)6564
Total Scaffold Genes16 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)3 (18.75%)
Novel Protein Genes5 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)0 (0.00%)
Associated Families5

Taxonomy
Not Available(Source: )

Ecosystem & Geography

Source Dataset Ecosystem
Environmental → Aquatic → Non-Marine Saline And Alkaline → Saline → Unclassified → Pond Water → Salt Pond Water, Soil And Salt Crust Microbial Communities From South San Francisco Under Conditions Of Wetland Restoration.

Source Dataset Sampling Location
Location NameSouth San Francisco, USA
CoordinatesLat. (o)37.4958Long. (o)-122.1331Alt. (m)Depth (m)0
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F026712Metagenome / Metatranscriptome197Y
F030556Metagenome / Metatranscriptome185Y
F031255Metagenome / Metatranscriptome183N
F035552Metagenome172N
F059010Metagenome / Metatranscriptome134N

Sequences

Protein IDFamilyRBSSequence
Ga0102945_100156612F030556N/AMSDKVFVGKTNVVTTQYGEIVKVSFGPQDFEKLNNAKNDMGWVNLEIKGKRDGGKYIQIQGEYKGASKATAVNDSDAMPF*
Ga0102945_100156615F059010N/AMKRQELLNQVAEKLERCEYTPIVTTKEELPIWTMLLNKVYEETFNTKER*
Ga0102945_10015662F026712N/AMKMYFTMKDEEQEQLMDLVCMEQMQRWGTYDNYNVQEVAYRQAVSDGAMRTDNYFNK*
Ga0102945_10015664F031255N/AMKAEKITRNEMVEALQDTGHIFGAEYRKKNGEVTRINGRFGVRKFTKGTGKSNPNVWTIWDNNRKRYTSLIPENILEVSYNGQKWKLV*
Ga0102945_10015666F035552N/AMTNADDLLLRADLETLYGVLSRLAEYAKVKEEKELIQLLLHLEKFVEIHKTRTRDMVTYRDTIEKARDEYRSLYLKYKGMEEQLDATQKVLHKIMNEEFNTEDDDKDLGF*
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