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_10123242

Scaffold Ga0222712_10123242


Overview

Basic Information
Taxon OID3300021963 Open in IMG/M
Scaffold IDGa0222712_10123242 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)1782
Total Scaffold Genes5 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)4 (80.00%)
Novel Protein Genes4 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)3 (75.00%)
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)38.1516Long. (o)-121.6883Alt. (m)Depth (m)10
Location on Map
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Associated Families

FamilyCategoryNumber of Sequences3D Structure?
F000311Metagenome / Metatranscriptome1326Y
F000450Metagenome / Metatranscriptome1126Y
F000714Metagenome / Metatranscriptome924Y
F001043Metagenome / Metatranscriptome794Y

Sequences

Protein IDFamilyRBSSequence
Ga0222712_101232421F000450GGCGGMGDRANFGFVQPNGNTIVLYGHWAGHNMLGRLADAVIAARPRWTDTSYATRIATSQLIADQWNMETGWGLMVNERGDNEHKIAIVDFEQQTFSLHEEDDFRNQGNKVRGMKNEAIFTMDLSAFCEKYALEKLLVN
Ga0222712_101232423F001043AGGAGMSDYKDGFTDGVKWAKEDLAERLREIDIMDIDSWMLDRLADMIEGGDL
Ga0222712_101232424F000311GGAMYFELKAPNQLALQGAFWEAEVVGLDPELNSQPLTFNIGTGSIEKVSRIRDKYNLVESYTSDYEPTGYTRR
Ga0222712_101232425F000714N/APSCNCSDPAVVWCQTSVVESSTNQTKEEQMETTTPAVTVPDTYNPNLLVTYKVIHGYSDAEYATDKVTSIEWDLHNARQAQKRNAVLQDKIDAVKQIICEAYADSQDQDTLREIAEALDIELVKEVEWTASIEVSGTYSYNILENDYELDLESDITDAIFADSHHGNIEINDQEVCNVRE
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Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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