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_10025437

Scaffold Ga0222714_10025437


Overview

Basic Information
Taxon OID3300021961 Open in IMG/M
Scaffold IDGa0222714_10025437 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)4519
Total Scaffold Genes10 (view)
Total Scaffold Genes with Ribosome Binding Sites (RBS)2 (20.00%)
Novel Protein Genes3 (view)
Novel Protein Genes with Ribosome Binding Sites (RBS)1 (33.33%)
Associated Families3

Taxonomy
Not Available(Source: )

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?
F010083Metagenome / Metatranscriptome308N
F031470Metagenome / Metatranscriptome182N
F050346Metagenome / Metatranscriptome145Y

Sequences

Protein IDFamilyRBSSequence
Ga0222714_100254375F031470AGGAMRLNDRISLNKINPFADPMEFTPGVPLGGAYKTIYAPSKGPQVALVNEVRPVGDALGGVIAPQDFEPSQGCENTIAAGWRTPYYCTPGSQDYPLNRNPYPERNYSLPPWLNVPLVEKYNILVKTEGMVGNIDLANIAGNAATGILIALGILTLVKFL
Ga0222714_100254377F010083N/AMYNFMVKLVGWWYNENPYRITMPLKMIYDINTKKDCLLPTAEWKRIMEAWPLMNSGHVYSTCYYPDFRDAIYVLRRKKPECVENIRYEQEYTYRDAPYSLVTRDPWRKVDYIEEEEEPRMKGPIMIQKVEAVMENNEVIMWDTARFLRYAGPRSDFHNVKDIRMMDLFDANEEVPDEWHVYMFGKTIIIKKDDLLTPQTLAPSRI
Ga0222714_100254379F050346N/AMITKPEEVPKSLGNVYSYKQGCSSWKEFMSARGETGFKQFLKDLYDRDYLKISRTQSSKC
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Bioinformatics & Integrated Biology Lab
Institute for Fundamental Biomedical Research
Biomedical Sciences Research Center "Alexander Fleming"
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