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_10039520

Scaffold Ga0222714_10039520


Overview

Basic Information
Taxon OID3300021961 Open in IMG/M
Scaffold IDGa0222714_10039520 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)3393
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (20.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (25.00%)
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)38.0516Long. (o)-121.88Alt. (m)Depth (m)13
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000962Metagenome / Metatranscriptome820Y
F016528Metagenome / Metatranscriptome246N
F028145Metagenome / Metatranscriptome192N
F030360Metagenome / Metatranscriptome185N

Sequences

Protein IDFamilyRBSSequence
Ga0222714_1003952010F030360N/AMSEQTYMNLKDAVKRPVLSEKTVNRSNKAFVRMVDNYQKWNESITADELRETYEDDIFNCLFEYDLDGYNLAEFLRDKVHLEPDAGLVDILDDMIYVKKSLEDEMLKQWVKENFLTISDDVVGKKVNAKQGIRKYENLYITGIRPDTYQVTISDNINAKGGRIVGFENVTILD
Ga0222714_100395206F016528N/AMINNNELFAKVLAENPLPYHFGDKVNTNRGIGFISGYNFKDREKTWKFTIRPFGLTNYYTDVEIVYGKVD
Ga0222714_100395208F028145N/AMKLFLIFIINLILSLGTSILLYKLFKVDISPVTFSLATITIYMFLPQRFHDWIAK
Ga0222714_100395209F000962GGAMNIHVPEEIKKKYPHMEFRGKQRILNDRTVIEAYNHATNQNFFYSFDEDFFWFPGQIPDYKLPKVS
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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